| 3947 | | > ui mousemode right "translate selected atoms" |
| 3948 | | |
| 3949 | | > select clear |
| 3950 | | |
| 3951 | | > select # 2.1:580-end |
| 3952 | | |
| 3953 | | 1758 atoms, 1792 bonds, 212 residues, 1 model selected |
| 3954 | | |
| 3955 | | > select clear |
| 3956 | | |
| 3957 | | > hide #!1 models |
| 3958 | | |
| 3959 | | > select #2.1/A:581 |
| 3960 | | |
| 3961 | | 9 atoms, 8 bonds, 1 residue, 1 model selected |
| 3962 | | |
| 3963 | | > select clear |
| 3964 | | |
| 3965 | | > select #2.1/A:581 |
| 3966 | | |
| 3967 | | 9 atoms, 8 bonds, 1 residue, 1 model selected |
| 3968 | | |
| 3969 | | > select #2.1/A:580 |
| 3970 | | |
| 3971 | | 5 atoms, 4 bonds, 1 residue, 1 model selected |
| 3972 | | |
| 3973 | | > select clear |
| 3974 | | |
| 3975 | | > show #!1 models |
| 3976 | | |
| 3977 | | > view orient |
| 3978 | | |
| 3979 | | > sym #2.1 C18 center #1.1 copies true |
| 3980 | | |
| 3981 | | Made 18 copies for pflA symmetry C18 |
| 3982 | | |
| 3983 | | > rename #12 "pflA FlgY" |
| 3984 | | |
| 3985 | | > show #!9 models |
| 3986 | | |
| 3987 | | > hide #!1 models |
| 3988 | | |
| 3989 | | > hide #!3 models |
| 3990 | | |
| 3991 | | > close #12.3,7,10,14,18 |
| 3992 | | |
| 3993 | | > rename #12.1 id #9.1 |
| 3994 | | |
| 3995 | | > rename #12.2 id #9.2 |
| 3996 | | |
| 3997 | | > rename #12.4 id #9.4 |
| 3998 | | |
| 3999 | | > rename #12.5 id #9.5 |
| 4000 | | |
| 4001 | | > rename #12.6 id #9.6 |
| 4002 | | |
| 4003 | | > rename #12.8 id #9.8 |
| 4004 | | |
| 4005 | | > rename #12.9 id #9.9 |
| 4006 | | |
| 4007 | | > rename #12.11 id #9.11 |
| 4008 | | |
| 4009 | | > rename #12.12 id #9.12 |
| 4010 | | |
| 4011 | | > rename #12.13 id #9.13 |
| 4012 | | |
| 4013 | | > rename #12.15 id #9.15 |
| 4014 | | |
| 4015 | | > rename #12.16 id #9.16 |
| 4016 | | |
| 4017 | | > rename #12.17 id #9.17 |
| 4018 | | |
| 4019 | | > close #12 |
| 4020 | | |
| 4021 | | > rename #9 "pflA " |
| 4022 | | |
| 4023 | | > show #!7 models |
| 4024 | | |
| 4025 | | > save "C:/Users/Jack Botting/Documents/Chimera/Saved Sessions/pylori flgY |
| 4026 | | > pflA pflB.cxs" |
| 4027 | | |
| 4028 | | ——— End of log from Mon Jun 3 14:11:08 2024 ——— |
| 4029 | | |
| 4030 | | opened ChimeraX session |
| 4031 | | Showing HP-PflA-PflB-2.1A.seg - 283 regions, 283 surfaces |
| 4032 | | |
| 4033 | | > color #2.2 mediumslateblue |
| 4034 | | |
| 4035 | | > color #2.1 #ff5500ff |
| 4036 | | |
| 4037 | | > color #9 #ff5500ff models |
| 4038 | | |
| 4039 | | > color #7 deeppink models |
| 4040 | | |
| 4041 | | > hide #!4 models |
| 4042 | | |
| 4043 | | > save "C:/Users/Jack Botting/Documents/Chimera/Saved Sessions/pylori flgY |
| 4044 | | > pflA pflB.cxs" |
| 4045 | | |
| 4046 | | > select #7.1.1:116-end |
| 4047 | | |
| 4048 | | 643 atoms, 657 bonds, 84 residues, 1 model selected |
| 4049 | | |
| 4050 | | > select #7.1.1-2:116-end |
| 4051 | | |
| 4052 | | 1286 atoms, 1314 bonds, 168 residues, 2 models selected |
| 4053 | | |
| 4054 | | > view orient |
| 4055 | | |
| 4056 | | > undo |
| 4057 | | |
| 4058 | | [Repeated 1 time(s)] |
| 4059 | | |
| 4060 | | > select #7.1.1:116-end, #7.1.2:102-end |
| 4061 | | |
| 4062 | | Expected an objects specifier or a keyword |
| 4063 | | |
| 4064 | | > select #7.1.1:116-end |
| 4065 | | |
| 4066 | | 643 atoms, 657 bonds, 84 residues, 1 model selected |
| 4067 | | |
| 4068 | | > select #7.1.2:102-end |
| 4069 | | |
| 4070 | | 752 atoms, 767 bonds, 98 residues, 1 model selected |
| 4071 | | |
| 4072 | | > select #7.1.1-2:116-end |
| 4073 | | |
| 4074 | | 1286 atoms, 1314 bonds, 168 residues, 2 models selected |
| 4075 | | |
| 4076 | | > select add #7.1.2/B:115 |
| 4077 | | |
| 4078 | | 1295 atoms, 1322 bonds, 169 residues, 2 models selected |
| 4079 | | |
| 4080 | | > select add #7.1.2/B:114 |
| 4081 | | |
| 4082 | | 1303 atoms, 1329 bonds, 170 residues, 2 models selected |
| 4083 | | |
| 4084 | | > select add #7.1.2/B:113 |
| 4085 | | |
| 4086 | | 1312 atoms, 1337 bonds, 171 residues, 2 models selected |
| 4087 | | |
| 4088 | | > select add #7.1.2/B:112 |
| 4089 | | |
| 4090 | | 1318 atoms, 1342 bonds, 172 residues, 2 models selected |
| 4091 | | |
| 4092 | | > select add #7.1.2/B:111 |
| 4093 | | |
| 4094 | | 1330 atoms, 1354 bonds, 173 residues, 2 models selected |
| 4095 | | |
| 4096 | | > select add #7.1.2/B:110 |
| 4097 | | |
| 4098 | | 1337 atoms, 1360 bonds, 174 residues, 2 models selected |
| 4099 | | |
| 4100 | | > select add #7.1.2/B:109 |
| 4101 | | |
| 4102 | | 1346 atoms, 1368 bonds, 175 residues, 2 models selected |
| 4103 | | |
| 4104 | | > select add #7.1.2/B:108 |
| 4105 | | |
| 4106 | | 1350 atoms, 1371 bonds, 176 residues, 2 models selected |
| 4107 | | |
| 4108 | | > select add #7.1.2/B:107 |
| 4109 | | |
| 4110 | | 1358 atoms, 1378 bonds, 177 residues, 2 models selected |
| 4111 | | |
| 4112 | | > select add #7.1.2/B:106 |
| 4113 | | |
| 4114 | | 1367 atoms, 1386 bonds, 178 residues, 2 models selected |
| 4115 | | |
| 4116 | | > select add #7.1.2/B:105 |
| 4117 | | |
| 4118 | | 1373 atoms, 1391 bonds, 179 residues, 2 models selected |
| 4119 | | |
| 4120 | | > select add #7.1.2/B:104 |
| 4121 | | |
| 4122 | | 1381 atoms, 1398 bonds, 180 residues, 2 models selected |
| 4123 | | |
| 4124 | | > select add #7.1.2/B:103 |
| 4125 | | |
| 4126 | | 1390 atoms, 1406 bonds, 181 residues, 2 models selected |
| 4127 | | |
| 4128 | | > select add #7.1.2/B:102 |
| 4129 | | |
| 4130 | | 1395 atoms, 1410 bonds, 182 residues, 2 models selected |
| 4131 | | |
| 4132 | | > view orient |
| 4133 | | |
| 4134 | | > select clear |
| 4135 | | |
| 4136 | | > view orient |
| 4137 | | |
| 4138 | | [Repeated 1 time(s)] |
| 4139 | | |
| 4140 | | > save "C:/Users/Jack Botting/Documents/Chimera/Saved Sessions/pylori flgY |
| 4141 | | > pflA pflB.cxs" |
| 4142 | | |
| 4143 | | ——— End of log from Mon Jun 3 14:21:22 2024 ——— |
| 4144 | | |
| 4145 | | opened ChimeraX session |
| 4146 | | Showing HP-PflA-PflB-2.1A.seg - 283 regions, 283 surfaces |
| 4147 | | |
| 4148 | | > hide #!4 models |
| 4149 | | |
| 4150 | | > select #7.12.1-2:114-end |
| 4151 | | |
| 4152 | | 1320 atoms, 1348 bonds, 172 residues, 2 models selected |
| 4153 | | |
| 4154 | | > select add #7.12.2/B:113 |
| 4155 | | |
| 4156 | | 1329 atoms, 1356 bonds, 173 residues, 2 models selected |
| 4157 | | |
| 4158 | | > select add #7.12.2/B:111 |
| 4159 | | |
| 4160 | | 1341 atoms, 1368 bonds, 174 residues, 2 models selected |
| 4161 | | |
| 4162 | | > select add #7.12.2/B:112 |
| 4163 | | |
| 4164 | | 1347 atoms, 1373 bonds, 175 residues, 2 models selected |
| 4165 | | |
| 4166 | | > select add #7.12.2/B:110 |
| 4167 | | |
| 4168 | | 1354 atoms, 1379 bonds, 176 residues, 2 models selected |
| 4169 | | |
| 4170 | | > select subtract #7.12.2/B:110 |
| 4171 | | |
| 4172 | | 1347 atoms, 1373 bonds, 175 residues, 2 models selected |
| 4173 | | |
| 4174 | | > select add #7.12.2/B:109 |
| 4175 | | |
| 4176 | | 1356 atoms, 1381 bonds, 176 residues, 2 models selected |
| 4177 | | |
| 4178 | | > select add #7.12.2/B:110 |
| 4179 | | |
| 4180 | | 1363 atoms, 1387 bonds, 177 residues, 2 models selected |
| 4181 | | |
| 4182 | | > select add #7.12.2/B:107 |
| 4183 | | |
| 4184 | | 1371 atoms, 1394 bonds, 178 residues, 2 models selected |
| 4185 | | |
| 4186 | | > select add #7.12.2/B:108 |
| 4187 | | |
| 4188 | | 1375 atoms, 1397 bonds, 179 residues, 2 models selected |
| 4189 | | |
| 4190 | | > select add #7.12.2/B:106 |
| 4191 | | |
| 4192 | | 1384 atoms, 1405 bonds, 180 residues, 2 models selected |
| 4193 | | |
| 4194 | | > select add #7.12.2/B:105 |
| 4195 | | |
| 4196 | | 1390 atoms, 1410 bonds, 181 residues, 2 models selected |
| 4197 | | |
| 4198 | | > view orient |
| 4199 | | |
| 4200 | | > select clear |
| 4201 | | |
| 4202 | | > view orient |
| 4203 | | |
| 4204 | | > select #9.*:1-180 |
| 4205 | | |
| 4206 | | 25848 atoms, 26424 bonds, 3240 residues, 18 models selected |
| 4207 | | |
| 4208 | | > split sel |
| 4209 | | |
| 4210 | | Did not split pflA, has only one piece |
| 4211 | | [Repeated 17 time(s)] |
| 4212 | | |
| 4213 | | > split #9.* atoms :180-end |
| 4214 | | |
| 4215 | | Split pflA (#9.1) into 2 models |
| 4216 | | Split pflA (#9.2) into 2 models |
| 4217 | | Split pflA (#9.3) into 2 models |
| 4218 | | Split pflA (#9.4) into 2 models |
| 4219 | | Split pflA (#9.5) into 2 models |
| 4220 | | Split pflA (#9.6) into 2 models |
| 4221 | | Split pflA (#9.7) into 2 models |
| 4222 | | Split pflA (#9.8) into 2 models |
| 4223 | | Split pflA (#9.9) into 2 models |
| 4224 | | Split pflA (#9.10) into 2 models |
| 4225 | | Split pflA (#9.11) into 2 models |
| 4226 | | Split pflA (#9.12) into 2 models |
| 4227 | | Split pflA (#9.13) into 2 models |
| 4228 | | Split pflA (#9.14) into 2 models |
| 4229 | | Split pflA (#9.15) into 2 models |
| 4230 | | Split pflA (#9.16) into 2 models |
| 4231 | | Split pflA (#9.17) into 2 models |
| 4232 | | Split pflA (#9.18) into 2 models |
| 4233 | | Chain information for pflA 1 #9.1.1 |
| 4234 | | --- |
| 4235 | | Chain | Description |
| 4236 | | A | No description available |
| 4237 | | |
| 4238 | | Chain information for pflA 2 #9.1.2 |
| 4239 | | --- |
| 4240 | | Chain | Description |
| 4241 | | A | No description available |
| 4242 | | |
| 4243 | | Chain information for pflA 1 #9.2.1 |
| 4244 | | --- |
| 4245 | | Chain | Description |
| 4246 | | A | No description available |
| 4247 | | |
| 4248 | | Chain information for pflA 2 #9.2.2 |
| 4249 | | --- |
| 4250 | | Chain | Description |
| 4251 | | A | No description available |
| 4252 | | |
| 4253 | | Chain information for pflA 1 #9.3.1 |
| 4254 | | --- |
| 4255 | | Chain | Description |
| 4256 | | A | No description available |
| 4257 | | |
| 4258 | | Chain information for pflA 2 #9.3.2 |
| 4259 | | --- |
| 4260 | | Chain | Description |
| 4261 | | A | No description available |
| 4262 | | |
| 4263 | | Chain information for pflA 1 #9.4.1 |
| 4264 | | --- |
| 4265 | | Chain | Description |
| 4266 | | A | No description available |
| 4267 | | |
| 4268 | | Chain information for pflA 2 #9.4.2 |
| 4269 | | --- |
| 4270 | | Chain | Description |
| 4271 | | A | No description available |
| 4272 | | |
| 4273 | | Chain information for pflA 1 #9.5.1 |
| 4274 | | --- |
| 4275 | | Chain | Description |
| 4276 | | A | No description available |
| 4277 | | |
| 4278 | | Chain information for pflA 2 #9.5.2 |
| 4279 | | --- |
| 4280 | | Chain | Description |
| 4281 | | A | No description available |
| 4282 | | |
| 4283 | | Chain information for pflA 1 #9.6.1 |
| 4284 | | --- |
| 4285 | | Chain | Description |
| 4286 | | A | No description available |
| 4287 | | |
| 4288 | | Chain information for pflA 2 #9.6.2 |
| 4289 | | --- |
| 4290 | | Chain | Description |
| 4291 | | A | No description available |
| 4292 | | |
| 4293 | | Chain information for pflA 1 #9.7.1 |
| 4294 | | --- |
| 4295 | | Chain | Description |
| 4296 | | A | No description available |
| 4297 | | |
| 4298 | | Chain information for pflA 2 #9.7.2 |
| 4299 | | --- |
| 4300 | | Chain | Description |
| 4301 | | A | No description available |
| 4302 | | |
| 4303 | | Chain information for pflA 1 #9.8.1 |
| 4304 | | --- |
| 4305 | | Chain | Description |
| 4306 | | A | No description available |
| 4307 | | |
| 4308 | | Chain information for pflA 2 #9.8.2 |
| 4309 | | --- |
| 4310 | | Chain | Description |
| 4311 | | A | No description available |
| 4312 | | |
| 4313 | | Chain information for pflA 1 #9.9.1 |
| 4314 | | --- |
| 4315 | | Chain | Description |
| 4316 | | A | No description available |
| 4317 | | |
| 4318 | | Chain information for pflA 2 #9.9.2 |
| 4319 | | --- |
| 4320 | | Chain | Description |
| 4321 | | A | No description available |
| 4322 | | |
| 4323 | | Chain information for pflA 1 #9.10.1 |
| 4324 | | --- |
| 4325 | | Chain | Description |
| 4326 | | A | No description available |
| 4327 | | |
| 4328 | | Chain information for pflA 2 #9.10.2 |
| 4329 | | --- |
| 4330 | | Chain | Description |
| 4331 | | A | No description available |
| 4332 | | |
| 4333 | | Chain information for pflA 1 #9.11.1 |
| 4334 | | --- |
| 4335 | | Chain | Description |
| 4336 | | A | No description available |
| 4337 | | |
| 4338 | | Chain information for pflA 2 #9.11.2 |
| 4339 | | --- |
| 4340 | | Chain | Description |
| 4341 | | A | No description available |
| 4342 | | |
| 4343 | | Chain information for pflA 1 #9.12.1 |
| 4344 | | --- |
| 4345 | | Chain | Description |
| 4346 | | A | No description available |
| 4347 | | |
| 4348 | | Chain information for pflA 2 #9.12.2 |
| 4349 | | --- |
| 4350 | | Chain | Description |
| 4351 | | A | No description available |
| 4352 | | |
| 4353 | | Chain information for pflA 1 #9.13.1 |
| 4354 | | --- |
| 4355 | | Chain | Description |
| 4356 | | A | No description available |
| 4357 | | |
| 4358 | | Chain information for pflA 2 #9.13.2 |
| 4359 | | --- |
| 4360 | | Chain | Description |
| 4361 | | A | No description available |
| 4362 | | |
| 4363 | | Chain information for pflA 1 #9.14.1 |
| 4364 | | --- |
| 4365 | | Chain | Description |
| 4366 | | A | No description available |
| 4367 | | |
| 4368 | | Chain information for pflA 2 #9.14.2 |
| 4369 | | --- |
| 4370 | | Chain | Description |
| 4371 | | A | No description available |
| 4372 | | |
| 4373 | | Chain information for pflA 1 #9.15.1 |
| 4374 | | --- |
| 4375 | | Chain | Description |
| 4376 | | A | No description available |
| 4377 | | |
| 4378 | | Chain information for pflA 2 #9.15.2 |
| 4379 | | --- |
| 4380 | | Chain | Description |
| 4381 | | A | No description available |
| 4382 | | |
| 4383 | | Chain information for pflA 1 #9.16.1 |
| 4384 | | --- |
| 4385 | | Chain | Description |
| 4386 | | A | No description available |
| 4387 | | |
| 4388 | | Chain information for pflA 2 #9.16.2 |
| 4389 | | --- |
| 4390 | | Chain | Description |
| 4391 | | A | No description available |
| 4392 | | |
| 4393 | | Chain information for pflA 1 #9.17.1 |
| 4394 | | --- |
| 4395 | | Chain | Description |
| 4396 | | A | No description available |
| 4397 | | |
| 4398 | | Chain information for pflA 2 #9.17.2 |
| 4399 | | --- |
| 4400 | | Chain | Description |
| 4401 | | A | No description available |
| 4402 | | |
| 4403 | | Chain information for pflA 1 #9.18.1 |
| 4404 | | --- |
| 4405 | | Chain | Description |
| 4406 | | A | No description available |
| 4407 | | |
| 4408 | | Chain information for pflA 2 #9.18.2 |
| 4409 | | --- |
| 4410 | | Chain | Description |
| 4411 | | A | No description available |
| 4412 | | |
| 4413 | | |
| 4414 | | > hide #9.*.2 cartoons |
| 4415 | | |
| 4416 | | > view orient |
| 4417 | | |
| 4418 | | > show #2.2 cartoons |
| 4419 | | |
| 4420 | | > split #2.2 atoms :1-137 |
| 4421 | | |
| 4422 | | Split pflB (#2.2) into 2 models |
| 4423 | | Chain information for pflB 1 #2.2.1 |
| 4424 | | --- |
| 4425 | | Chain | Description |
| 4426 | | B | No description available |
| 4427 | | |
| 4428 | | Chain information for pflB 2 #2.2.2 |
| 4429 | | --- |
| 4430 | | Chain | Description |
| 4431 | | B | No description available |
| 4432 | | |
| 4433 | | |
| 4434 | | > view orient |
| 4435 | | |
| 4436 | | > hide #2.2.2 models |
| 4437 | | |
| 4438 | | > show #2.2.2 models |
| 4439 | | |
| 4440 | | > close #2.2.1 |
| 4441 | | |
| 4442 | | > sym #2.2 C18 center #1.1 |
| 4443 | | |
| 4444 | | Invalid "center" argument: Center argument has no object bounds |
| 4445 | | |
| 4446 | | > show #!1.1 models |
| 4447 | | |
| 4448 | | > hide #!1.1 models |
| 4449 | | |
| 4450 | | > show #!1.1 models |
| 4451 | | |
| 4452 | | > sym #2.2 C18 center #1.1 |
| 4453 | | |
| 4454 | | Made 18 graphical clones for pflB 2 symmetry C18 |
| 4455 | | |
| 4456 | | > hide #!1 models |
| 4457 | | |
| 4458 | | > show |
| 4459 | | > #2.2.2#7.1.1-3#7.2.1-3#7.3.1-3#7.4.1-3#7.5.1-3#7.6.1-3#7.7.1-3#7.8.1-3#7.9.1-3#7.10.1-3#7.11.1-3#7.12.1-3#7.13.1-3#7.14.1-3#7.15.1-3#7.16.1-3#7.17.1-3#7.18.1-3#9.1.1-2#9.2.1-2#9.3.1-2#9.4.1-2#9.5.1-2#9.6.1-2#9.7.1-2#9.8.1-2#9.9.1-2#9.10.1-2#9.11.1-2#9.12.1-2#9.13.1-2#9.14.1-2#9.15.1-2#9.16.1-2#9.17.1-2#9.18.1-2 |
| 4460 | | > surfaces |
| 4461 | | |
| 4462 | | > hide #9.*.2 surfaces |
| 4463 | | |
| 4464 | | > hide #7.*.3 surfaces |
| 4465 | | |
| 4466 | | > show #!3 models |
| 4467 | | |
| 4468 | | > color #3 #01543fff models |
| 4469 | | |
| 4470 | | > show |
| 4471 | | > #3.1-42#!3.43-81#!2.2.2#!7.1.1-3#!7.2.1-3#!7.3.1-3#!7.4.1-3#!7.5.1-3#!7.6.1-3#!7.7.1-3#!7.8.1-3#!7.9.1-3#!7.10.1-3#!7.11.1-3#!7.12.1-3#!7.13.1-3#!7.14.1-3#!7.15.1-3#!7.16.1-3#!7.17.1-3#!7.18.1-3#!9.1.1-2#!9.2.1-2#!9.3.1-2#!9.4.1-2#!9.5.1-2#!9.6.1-2#!9.7.1-2#!9.8.1-2#!9.9.1-2#!9.10.1-2#!9.11.1-2#!9.12.1-2#!9.13.1-2#!9.14.1-2#!9.15.1-2#!9.16.1-2#!9.17.1-2#!9.18.1-2 |
| 4472 | | > surfaces |
| 4473 | | |
| 4474 | | > hide #7.*.3 surfaces |
| 4475 | | |
| 4476 | | > hide #9.*.2 surfaces |
| 4477 | | |
| 4478 | | > view orient |
| 4479 | | |
| 4480 | | > lighting soft |
| 4481 | | |
| 4482 | | > lighting simple |
| 4483 | | |
| 4484 | | > hide |
| 4485 | | > #!3.1-81#!2.2.2#!7.1.1-3#!7.2.1-3#!7.3.1-3#!7.4.1-3#!7.5.1-3#!7.6.1-3#!7.7.1-3#!7.8.1-3#!7.9.1-3#!7.10.1-3#!7.11.1-3#!7.12.1-3#!7.13.1-3#!7.14.1-3#!7.15.1-3#!7.16.1-3#!7.17.1-3#!7.18.1-3#!9.1.1-2#!9.2.1-2#!9.3.1-2#!9.4.1-2#!9.5.1-2#!9.6.1-2#!9.7.1-2#!9.8.1-2#!9.9.1-2#!9.10.1-2#!9.11.1-2#!9.12.1-2#!9.13.1-2#!9.14.1-2#!9.15.1-2#!9.16.1-2#!9.17.1-2#!9.18.1-2 |
| 4486 | | > surfaces |
| 4487 | | |
| 4488 | | > view orient |
| 4489 | | |
| 4490 | | > save "C:/Users/Jack Botting/Documents/Chimera/Saved Sessions/pylori flgY |
| 4491 | | > pflA pflB.cxs" |
| 4492 | | |
| 4493 | | ——— End of log from Mon Jun 3 14:56:25 2024 ——— |
| 4494 | | |
| 4495 | | opened ChimeraX session |
| 4496 | | Showing HP-PflA-PflB-2.1A.seg - 283 regions, 283 surfaces |
| 4497 | | |
| 4498 | | > hide #!4 models |
| 4499 | | |
| 4500 | | > open "C:/Users/Jack Botting/Documents/Chimera/PDB/stator.pdb" |
| 4501 | | |
| 4502 | | Summary of feedback from opening C:/Users/Jack |
| 4503 | | Botting/Documents/Chimera/PDB/stator.pdb |
| 4504 | | --- |
| 4505 | | warnings | Start residue of secondary structure not found: HELIX 1 1 SER A 85 VAL A 87 1 3 |
| 4506 | | Start residue of secondary structure not found: HELIX 2 2 ARG A 88 LYS A 107 1 |
| 4507 | | 20 |
| 4508 | | Start residue of secondary structure not found: HELIX 3 3 ALA A 128 ALA A 130 |
| 4509 | | 1 3 |
| 4510 | | Start residue of secondary structure not found: HELIX 4 4 LEU A 141 ALA A 152 |
| 4511 | | 1 12 |
| 4512 | | Start residue of secondary structure not found: HELIX 5 5 PHE A 154 PHE A 157 |
| 4513 | | 1 4 |
| 4514 | | 247 messages similar to the above omitted |
| 4515 | | |
| 4516 | | Chain information for stator.pdb |
| 4517 | | --- |
| 4518 | | Chain | Description |
| 4519 | | 12.3/? | No description available |
| 4520 | | 12.14/? 12.15/? 12.16/? 12.17/? 12.18/? 12.19/? 12.20/? 12.21/? 12.22/? 12.23/? | No description available |
| 4521 | | 12.1/A 12.2/A | No description available |
| 4522 | | 12.4/B 12.5/B 12.6/B 12.7/B 12.8/B 12.9/B 12.10/B 12.11/B 12.12/B 12.13/B | No description available |
| 4523 | | |
| 4524 | | |
| 4525 | | > select add #12 |
| 4526 | | |
| 4527 | | 24669 atoms, 24971 bonds, 2802 residues, 24 models selected |
| 4528 | | |
| 4529 | | > ui mousemode right "translate selected models" |
| 4530 | | |
| 4531 | | > view matrix models #12,1,0,0,-578.91,0,1,0,28.461,0,0,1,-3.6162 |
| 4532 | | |
| 4533 | | > view matrix models #12,1,0,0,-563.77,0,1,0,48.676,0,0,1,-486.31 |
| 4534 | | |
| 4535 | | > view matrix models #12,1,0,0,-585.84,0,1,0,-392.56,0,0,1,-568.02 |
| 4536 | | |
| 4537 | | > view matrix models #12,1,0,0,-625.19,0,1,0,-401.85,0,0,1,-452.6 |
| 4538 | | |
| 4539 | | > show #!1 models |
| 4540 | | |
| 4541 | | > hide #!2.2 models |
| 4542 | | |
| 4543 | | > hide #!3 models |
| 4544 | | |
| 4545 | | > hide #!7 models |
| 4546 | | |
| 4547 | | > hide #!9 models |
| 4548 | | |
| 4549 | | > hide #!1.1 models |
| 4550 | | |
| 4551 | | > view matrix models #12,1,0,0,-595.83,0,1,0,-407.42,0,0,1,-449.38 |
| 4552 | | |
| 4553 | | > view matrix models #12,1,0,0,-589.75,0,1,0,-408.62,0,0,1,-485.85 |
| 4554 | | |
| 4555 | | > select clear |
| 4556 | | |
| 4557 | | > view orient |
| 4558 | | |
| 4559 | | > color #12 #00aa00ff models |
| 4560 | | |
| 4561 | | > color #12 #008600ff models |
| 4562 | | |
| 4563 | | > show #!1.1 models |
| 4564 | | |
| 4565 | | > view orient |
| 4566 | | |
| 4567 | | > show #!2.2 models |
| 4568 | | |
| 4569 | | > show #2.1 models |
| 4570 | | |
| 4571 | | > hide #2.1 models |
| 4572 | | |
| 4573 | | > show #!9 models |
| 4574 | | |
| 4575 | | > show #!7 models |
| 4576 | | |
| 4577 | | > view orient |
| 4578 | | |
| 4579 | | > hide #!1.2 models |
| 4580 | | |
| 4581 | | > view orient |
| 4582 | | |
| 4583 | | > sym #12 C18 center #1.1 |
| 4584 | | |
| 4585 | | Made 18 graphical clones for stator.pdb, stator.pdb, stator.pdb, stator.pdb, |
| 4586 | | stator.pdb, stator.pdb, stator.pdb, stator.pdb, stator.pdb, stator.pdb, |
| 4587 | | stator.pdb, stator.pdb, stator.pdb, stator.pdb, stator.pdb, stator.pdb, |
| 4588 | | stator.pdb, stator.pdb, stator.pdb, stator.pdb, stator.pdb, stator.pdb, |
| 4589 | | stator.pdb symmetry C18 |
| 4590 | | |
| 4591 | | > select clear |
| 4592 | | |
| 4593 | | [Repeated 1 time(s)] |
| 4594 | | |
| 4595 | | > color #12 #005400ff models |
| 4596 | | |
| 4597 | | > color #12 #004f00ff models |
| 4598 | | |
| 4599 | | > view orient |
| 4600 | | |
| 4601 | | > open "C:/Users/Jack Botting/Documents/alphafold |
| 4602 | | > results/fold_pylori_piln_pilo_pflb/fold_pylori_piln_pilo_pflb_model_0.cif" |
| 4603 | | |
| 4604 | | Chain information for fold_pylori_piln_pilo_pflb_model_0.cif #13 |
| 4605 | | --- |
| 4606 | | Chain | Description |
| 4607 | | A | . |
| 4608 | | B | . |
| 4609 | | C | . |
| 4610 | | |
| 4611 | | |
| 4612 | | > mmaker #13 to #2.2 |
| 4613 | | |
| 4614 | | Parameters |
| 4615 | | --- |
| 4616 | | Chain pairing | bb |
| 4617 | | Alignment algorithm | Needleman-Wunsch |
| 4618 | | Similarity matrix | BLOSUM-62 |
| 4619 | | SS fraction | 0.3 |
| 4620 | | Gap open (HH/SS/other) | 18/18/6 |
| 4621 | | Gap extend | 1 |
| 4622 | | SS matrix | | | H | S | O |
| 4623 | | ---|---|---|--- |
| 4624 | | H | 6 | -9 | -6 |
| 4625 | | S | | 6 | -6 |
| 4626 | | O | | | 4 |
| 4627 | | Iteration cutoff | 2 |
| 4628 | | |
| 4629 | | Matchmaker pflB 2, chain B (#2.2.2) with |
| 4630 | | fold_pylori_piln_pilo_pflb_model_0.cif, chain B (#13), sequence alignment |
| 4631 | | score = 3635.5 |
| 4632 | | RMSD between 608 pruned atom pairs is 0.697 angstroms; (across all 707 pairs: |
| 4633 | | 6.109) |
| 4634 | | |
| 4635 | | |
| 4636 | | > hide #!12 models |
| 4637 | | |
| 4638 | | > hide #!9 models |
| 4639 | | |
| 4640 | | > hide #!7 models |
| 4641 | | |
| 4642 | | > hide #!1.1 models |
| 4643 | | |
| 4644 | | > show #!1.2 models |
| 4645 | | |
| 4646 | | > select add #13 |
| 4647 | | |
| 4648 | | 9256 atoms, 9455 bonds, 1136 residues, 1 model selected |
| 4649 | | |
| 4650 | | > view matrix models |
| 4651 | | > #13,-0.63411,0.028196,-0.77273,298.14,-0.66839,0.48249,0.56609,10.698,0.38879,0.87545,-0.2871,-43.281 |
| 4652 | | |
| 4653 | | > view matrix models |
| 4654 | | > #13,-0.65422,0.035133,-0.75549,297.83,-0.56433,0.64236,0.51856,11.914,0.50351,0.7656,-0.40042,-41.315 |
| 4655 | | |
| 4656 | | > view matrix models |
| 4657 | | > #13,-0.65422,0.035133,-0.75549,315.66,-0.56433,0.64236,0.51856,-322.03,0.50351,0.7656,-0.40042,-56.272 |
| 4658 | | |
| 4659 | | > split #13 atoms /B |
| 4660 | | |
| 4661 | | Split fold_pylori_piln_pilo_pflb_model_0.cif (#13) into 2 models |
| 4662 | | Chain information for fold_pylori_piln_pilo_pflb_model_0.cif 1 #13.1 |
| 4663 | | --- |
| 4664 | | Chain | Description |
| 4665 | | B | No description available |
| 4666 | | |
| 4667 | | Chain information for fold_pylori_piln_pilo_pflb_model_0.cif 2 #13.2 |
| 4668 | | --- |
| 4669 | | Chain | Description |
| 4670 | | A | No description available |
| 4671 | | C | No description available |
| 4672 | | |
| 4673 | | |
| 4674 | | > hide #13.1 models |
| 4675 | | |
| 4676 | | > close #13.1 |
| 4677 | | |
| 4678 | | > select add #13.2 |
| 4679 | | |
| 4680 | | 2418 atoms, 2473 bonds, 292 residues, 1 model selected |
| 4681 | | |
| 4682 | | > view matrix models |
| 4683 | | > #13.2,-0.65422,0.035133,-0.75549,298.03,-0.56433,0.64236,0.51856,-2.1929,0.50351,0.7656,-0.40042,-37.817 |
| 4684 | | |
| 4685 | | > view matrix models |
| 4686 | | > #13.2,-0.65734,0.03675,-0.7527,298.07,-0.54523,0.6663,0.50869,-2.4932,0.52022,0.74477,-0.41795,-37.968 |
| 4687 | | |
| 4688 | | > view orient |
| 4689 | | |
| 4690 | | > turn x -90 |
| 4691 | | |
| 4692 | | > view matrix models |
| 4693 | | > #13.2,-0.65734,0.03675,-0.7527,298.08,-0.54523,0.6663,0.50869,1.2039,0.52022,0.74477,-0.41795,-13.096 |
| 4694 | | |
| 4695 | | > view matrix models |
| 4696 | | > #13.2,-0.65734,0.03675,-0.7527,360.28,-0.54523,0.6663,0.50869,13.702,0.52022,0.74477,-0.41795,-17.781 |
| 4697 | | |
| 4698 | | > view matrix models |
| 4699 | | > #13.2,-0.65734,0.03675,-0.7527,360.09,-0.54523,0.6663,0.50869,3.9914,0.52022,0.74477,-0.41795,-24.544 |
| 4700 | | |
| 4701 | | > fitmap #13.2 inMap #1.2 |
| 4702 | | |
| 4703 | | Fit molecule fold_pylori_piln_pilo_pflb_model_0.cif 2 (#13.2) to map HP-PflA- |
| 4704 | | PflB-2.1A.mrc (#1.2) using 2418 atoms |
| 4705 | | average map value = 5.318, steps = 244 |
| 4706 | | shifted from previous position = 9.27 |
| 4707 | | rotated from previous position = 20.2 degrees |
| 4708 | | atoms outside contour = 513, contour level = 0.78314 |
| 4709 | | |
| 4710 | | Position of fold_pylori_piln_pilo_pflb_model_0.cif 2 (#13.2) relative to HP- |
| 4711 | | PflA-PflB-2.1A.mrc (#1.2) coordinates: |
| 4712 | | Matrix rotation and translation |
| 4713 | | -0.38190509 0.03803185 -0.92341869 130.64005158 |
| 4714 | | -0.57941091 0.76856187 0.27128518 5.36319709 |
| 4715 | | 0.72002188 0.63864406 -0.27148162 -93.36724892 |
| 4716 | | Axis 0.20481382 -0.91626845 -0.34424325 |
| 4717 | | Axis point 91.29210272 0.00000000 -7.11876351 |
| 4718 | | Rotation angle (degrees) 116.25790439 |
| 4719 | | Shift along axis 53.98380587 |
| 4720 | | |
| 4721 | | |
| 4722 | | > combine #13 |
| 4723 | | |
| 4724 | | > select add #14 |
| 4725 | | |
| 4726 | | 4836 atoms, 4946 bonds, 584 residues, 2 models selected |
| 4727 | | |
| 4728 | | > view matrix models |
| 4729 | | > #13.2,-0.38191,0.038032,-0.92342,343.93,-0.57941,0.76856,0.27129,3.1769,0.72002,0.63864,-0.27148,-29.695,#14,-0.38191,0.038032,-0.92342,343.93,-0.57941,0.76856,0.27129,3.1769,0.72002,0.63864,-0.27148,-29.695 |
| 4730 | | |
| 4731 | | > undo |
| 4732 | | |
| 4733 | | > select subtract #13.2 |
| 4734 | | |
| 4735 | | 2418 atoms, 2473 bonds, 292 residues, 1 model selected |
| 4736 | | |
| 4737 | | > view matrix models |
| 4738 | | > #14,-0.38191,0.038032,-0.92342,340.37,-0.57941,0.76856,0.27129,54.359,0.72002,0.63864,-0.27148,-44.455 |
| 4739 | | |
| 4740 | | > select up |
| 4741 | | |
| 4742 | | 34274 atoms, 34866 bonds, 4224 residues, 15 models selected |
| 4743 | | |
| 4744 | | > select clear |
| 4745 | | |
| 4746 | | > fitmap #14 inMap #1.2 |
| 4747 | | |
| 4748 | | Fit molecule copy of fold_pylori_piln_pilo_pflb_model_0.cif 2 (#14) to map HP- |
| 4749 | | PflA-PflB-2.1A.mrc (#1.2) using 2418 atoms |
| 4750 | | average map value = 4.763, steps = 536 |
| 4751 | | shifted from previous position = 11.3 |
| 4752 | | rotated from previous position = 26.7 degrees |
| 4753 | | atoms outside contour = 656, contour level = 0.78314 |
| 4754 | | |
| 4755 | | Position of copy of fold_pylori_piln_pilo_pflb_model_0.cif 2 (#14) relative to |
| 4756 | | HP-PflA-PflB-2.1A.mrc (#1.2) coordinates: |
| 4757 | | Matrix rotation and translation |
| 4758 | | -0.67020056 0.24615531 -0.70017053 144.21435003 |
| 4759 | | -0.23151960 0.82698178 0.51234736 47.22202715 |
| 4760 | | 0.70514530 0.50547868 -0.49725387 -115.16981588 |
| 4761 | | Axis -0.00462757 -0.94678980 -0.32181928 |
| 4762 | | Axis point 99.64464218 0.00000000 -31.77890818 |
| 4763 | | Rotation angle (degrees) 132.08530707 |
| 4764 | | Shift along axis -8.31282746 |
| 4765 | | |
| 4766 | | |
| 4767 | | > combine #13.2,14 |
| 4768 | | |
| 4769 | | > hide #14 models |
| 4770 | | |
| 4771 | | > hide #!13 models |
| 4772 | | |
| 4773 | | > show #!13 models |
| 4774 | | |
| 4775 | | > show #14 models |
| 4776 | | |
| 4777 | | > close #15 |
| 4778 | | |
| 4779 | | > combine #13.2 #14 |
| 4780 | | |
| 4781 | | Remapping chain ID 'A' in copy of fold_pylori_piln_pilo_pflb_model_0.cif 2 #14 |
| 4782 | | to 'B' |
| 4783 | | Remapping chain ID 'C' in copy of fold_pylori_piln_pilo_pflb_model_0.cif 2 #14 |
| 4784 | | to 'D' |
| 4785 | | |
| 4786 | | > hide #13.2 models |
| 4787 | | |
| 4788 | | > hide #14 models |
| 4789 | | |
| 4790 | | > hide #15 models |
| 4791 | | |
| 4792 | | > show #15 models |
| 4793 | | |
| 4794 | | > view orient |
| 4795 | | |
| 4796 | | > hide #!1.2 models |
| 4797 | | |
| 4798 | | > show #!1.1 models |
| 4799 | | |
| 4800 | | > show #!12 models |
| 4801 | | |
| 4802 | | > close #14#13 |
| 4803 | | |
| 4804 | | > rename #15 pilNO |
| 4805 | | |
| 4806 | | > show #!9 models |
| 4807 | | |
| 4808 | | > close #10 |
| 4809 | | |
| 4810 | | > show #!7 models |
| 4811 | | |
| 4812 | | > show #!3 models |
| 4813 | | |
| 4814 | | > view orient |
| 4815 | | |
| 4816 | | > sym #15 C18 center #1.1 |
| 4817 | | |
| 4818 | | Made 18 graphical clones for pilNO symmetry C18 |
| 4819 | | |
| 4820 | | > save "C:/Users/Jack Botting/Documents/Chimera/Saved Sessions/pylori flgY |
| 4821 | | > pflA pflB.cxs" |
| 4822 | | |
| 4823 | | ——— End of log from Mon Jun 3 15:09:09 2024 ——— |
| 4824 | | |
| 4825 | | opened ChimeraX session |
| 4826 | | Showing HP-PflA-PflB-2.1A.seg - 283 regions, 283 surfaces |
| 4827 | | |
| 4828 | | > hide #!4 models |
| 4829 | | |
| 4830 | | > color #12 #356a00ff models |
| 4831 | | |
| 4832 | | > color #15 #003600ff |
| 4833 | | |
| 4834 | | > hide #!1.1 models |
| 4835 | | |
| 4836 | | > save "C:/Users/Jack Botting/Documents/Chimera/Saved Sessions/pylori flgY |
| 4837 | | > pflA pflB.cxs" |
| 4838 | | |
| 4839 | | > lighting soft |
| 4840 | | |
| 4841 | | > show |
| 4842 | | > #15#12.1-23#!3.1-81#!2.2.2#!7.1.1-3#!7.2.1-3#!7.3.1-3#!7.4.1-3#!7.5.1-3#!7.6.1-3#!7.7.1-3#!7.8.1-3#!7.9.1-3#!7.10.1-3#!7.11.1-3#!7.12.1-3#!7.13.1-3#!7.14.1-3#!7.15.1-3#!7.16.1-3#!7.17.1-3#!7.18.1-3#!9.1.1-2#!9.2.1-2#!9.3.1-2#!9.4.1-2#!9.5.1-2#!9.6.1-2#!9.7.1-2#!9.8.1-2#!9.9.1-2#!9.10.1-2#!9.11.1-2#!9.12.1-2#!9.13.1-2#!9.14.1-2#!9.15.1-2#!9.16.1-2#!9.17.1-2#!9.18.1-2 |
| 4843 | | > surfaces |
| 4844 | | |
| 4845 | | > hide #9.*.2 surfaces |
| 4846 | | |
| 4847 | | > hide #17.*.3 surfaces |
| 4848 | | |
| 4849 | | [Repeated 1 time(s)] |
| 4850 | | |
| 4851 | | > hide #7.*.3 surfaces |
| 4852 | | |
| 4853 | | > view orient |
| 4854 | | |
| 4855 | | > hide #!7.4 models |
| 4856 | | |
| 4857 | | > hide #!7.18 models |
| 4858 | | |
| 4859 | | > hide #!7.15 models |
| 4860 | | |
| 4861 | | > hide #!7.11 models |
| 4862 | | |
| 4863 | | > hide #!7.8 models |
| 4864 | | |
| 4865 | | > save "C:/Users/Jack Botting/Documents/Chimera/Images/pylori FlgY system.jpg" |
| 4866 | | > width 2848 height 1180 supersample 3 |
| 4867 | | |
| 4868 | | > lighting simple |
| 4869 | | |
| 4870 | | > save "C:/Users/Jack Botting/Documents/Chimera/Saved Sessions/pylori flgY |
| 4871 | | > pflA pflB.cxs" |
| 4872 | | |
| 4873 | | ——— End of log from Mon Jun 3 15:19:25 2024 ——— |
| 4874 | | |
| 4875 | | opened ChimeraX session |
| 4876 | | Showing HP-PflA-PflB-2.1A.seg - 283 regions, 283 surfaces |
| 4877 | | |
| 4878 | | > hide |
| 4879 | | > #!15#!3.1-81#!12.1-23#!2.2.2#!7.1.1-3#!7.2.1-3#!7.3.1-3#!7.5.1-3#!7.6.1-3#!7.7.1-3#!7.9.1-3#!7.10.1-3#!7.12.1-3#!7.13.1-3#!7.14.1-3#!7.16.1-3#!7.17.1-3#!9.1.1-2#!9.2.1-2#!9.3.1-2#!9.4.1-2#!9.5.1-2#!9.6.1-2#!9.7.1-2#!9.8.1-2#!9.9.1-2#!9.10.1-2#!9.11.1-2#!9.12.1-2#!9.13.1-2#!9.14.1-2#!9.15.1-2#!9.16.1-2#!9.17.1-2#!9.18.1-2 |
| 4880 | | > surfaces |
| 4881 | | |
| 4882 | | > hide #!4 models |
| 4883 | | |
| 4884 | | > show #!1.2 models |
| 4885 | | |
| 4886 | | > color #1.2 #00000080 models |
| 4887 | | |
| 4888 | | > color #1.2 #a8a8a880 models |
| 4889 | | |
| 4890 | | > color #1.2 #adadad80 models |
| 4891 | | |
| 4892 | | > view orient |
| 4893 | | |
| 4894 | | > hide #!12 models |
| 4895 | | |
| 4896 | | > hide #!15 models |
| 4897 | | |
| 4898 | | > hide #!3 models |
| 4899 | | |
| 4900 | | > view orient |
| 4901 | | |
| 4902 | | > hide #!1.2 models |
| 4903 | | |
| 4904 | | > show #!1.1 models |
| 4905 | | |
| 4906 | | > view orient |
| 4907 | | |
| 4908 | | [Repeated 1 time(s)] |
| 4909 | | |
| 4910 | | > close #4 |
| 4911 | | |
| 4912 | | > rename #3 id #13 |
| 4913 | | |
| 4914 | | > rename #2.2 id #3 |
| 4915 | | |
| 4916 | | > rename #5 id #16 |
| 4917 | | |
| 4918 | | > rename #8 id #17 |
| 4919 | | |
| 4920 | | > rename #11 id #18 |
| 4921 | | |
| 4922 | | > close #2 |
| 4923 | | |
| 4924 | | > hide #!1 models |
| 4925 | | |
| 4926 | | > show #!12 models |
| 4927 | | |
| 4928 | | > show #!13 models |
| 4929 | | |
| 4930 | | > show #!15 models |
| 4931 | | |
| 4932 | | > save "C:/Users/Jack Botting/Documents/Chimera/Saved Sessions/pylori flgY |
| 4933 | | > pflA pflB.cxs" |
| 4934 | | |
| 4935 | | > turn x -90 |
| 4936 | | |
| 4937 | | > view orient |
| 4938 | | |
| 4939 | | > close #7.*.3 |
| 4940 | | |
| 4941 | | > select #7.*:164-end |
| 4942 | | |
| 4943 | | 9864 atoms, 10188 bonds, 1296 residues, 36 models selected |
| 4944 | | |
| 4945 | | > view orient |
| 4946 | | |
| 4947 | | [Repeated 2 time(s)] |
| 4948 | | |
| 4949 | | > hide #7.*:164-end cartoons |
| 4950 | | |
| 4951 | | > view orient |
| 4952 | | |
| 4953 | | > turn x -90 |
| 4954 | | |
| 4955 | | > show #!1 models |
| 4956 | | |
| 4957 | | > hide #!7 models |
| 4958 | | |
| 4959 | | > hide #!3 models |
| 4960 | | |
| 4961 | | > hide #!9 models |
| 4962 | | |
| 4963 | | > hide #!12 models |
| 4964 | | |
| 4965 | | > hide #!15 models |
| 4966 | | |
| 4967 | | > select add #13 |
| 4968 | | |
| 4969 | | 121989 atoms, 123969 bonds, 15453 residues, 154 models selected |
| 4970 | | |
| 4971 | | > view matrix models |
| 4972 | | > #7.1.1,0.32864,0.93245,-0.15009,-186.67,-0.75761,0.35516,0.54762,-94.364,0.56394,-0.066262,0.82315,30.867,#7.1.2,0.32864,0.93245,-0.15009,-186.67,-0.75761,0.35516,0.54762,-94.364,0.56394,-0.066262,0.82315,30.867,#7.2.1,0.52473,0.79843,-0.29522,-145.29,-0.63767,0.59842,0.48504,-154.11,0.56394,-0.066262,0.82315,30.867,#7.2.2,0.52473,0.79843,-0.29522,-145.29,-0.63767,0.59842,0.48504,-154.11,0.56394,-0.066262,0.82315,30.867,#7.3.1,0.69449,0.57738,-0.42932,-81.712,-0.44682,0.81378,0.37163,-197.51,0.56394,-0.066262,0.82315,30.867,#7.3.2,0.69449,0.57738,-0.42932,-81.712,-0.44682,0.81378,0.37163,-197.51,0.56394,-0.066262,0.82315,30.867,#7.4.1,0.81186,0.22698,-0.53793,-13.526,-0.15119,0.97164,0.1818,-211.13,0.56394,-0.066262,0.82315,30.867,#7.4.2,0.81186,0.22698,-0.53793,-13.526,-0.15119,0.97164,0.1818,-211.13,0.56394,-0.066262,0.82315,30.867,#7.5.1,0.82059,-0.067022,-0.56758,45.023,0.092778,0.99555,0.016577,-207.23,0.56394,-0.066262,0.82315,30.867,#7.5.2,0.82059,-0.067022,-0.56758,45.023,0.092778,0.99555,0.016577,-207.23,0.56394,-0.066262,0.82315,30.867,#7.6.1,0.7191,-0.45069,-0.52894,124.06,0.40603,0.89022,-0.20651,-170.12,0.56394,-0.066262,0.82315,30.867,#7.6.2,0.7191,-0.45069,-0.52894,124.06,0.40603,0.89022,-0.20651,-170.12,0.56394,-0.066262,0.82315,30.867,#7.7.1,0.56372,-0.69752,-0.44236,175.15,0.60348,0.71349,-0.35601,-114.52,0.56394,-0.066262,0.82315,30.867,#7.7.2,0.56372,-0.69752,-0.44236,175.15,0.60348,0.71349,-0.35601,-114.52,0.56394,-0.066262,0.82315,30.867,#7.8.1,0.28987,-0.91747,-0.27245,203.1,0.77327,0.39225,-0.49819,-50.258,0.56394,-0.066262,0.82315,30.867,#7.8.2,0.28987,-0.91747,-0.27245,203.1,0.77327,0.39225,-0.49819,-50.258,0.56394,-0.066262,0.82315,30.867,#7.9.1,-0.0013443,-0.99685,-0.079323,204.97,0.82581,0.043627,-0.56225,16.669,0.56394,-0.066262,0.82315,30.867,#7.9.2,-0.0013443,-0.99685,-0.079323,204.97,0.82581,0.043627,-0.56225,16.669,0.56394,-0.066262,0.82315,30.867,#7.10.1,-0.26136,-0.95986,0.10179,182.41,0.78337,-0.27254,-0.55862,91.475,0.56394,-0.066262,0.82315,30.867,#7.10.2,-0.26136,-0.95986,0.10179,182.41,0.78337,-0.27254,-0.55862,91.475,0.56394,-0.066262,0.82315,30.867,#7.11.1,-0.52473,-0.79843,0.29522,143.14,0.63767,-0.59842,-0.48504,150.89,0.56394,-0.066262,0.82315,30.867,#7.11.2,-0.52473,-0.79843,0.29522,143.14,0.63767,-0.59842,-0.48504,150.89,0.56394,-0.066262,0.82315,30.867,#7.12.1,-0.74397,-0.47341,0.47159,80.282,0.35844,-0.87835,-0.31627,186.09,0.56394,-0.066262,0.82315,30.867,#7.12.2,-0.74397,-0.47341,0.47159,80.282,0.35844,-0.87835,-0.31627,186.09,0.56394,-0.066262,0.82315,30.867,#7.13.1,-0.81186,-0.22698,0.53793,11.377,0.15119,-0.97164,-0.1818,207.91,0.56394,-0.066262,0.82315,30.867,#7.13.2,-0.81186,-0.22698,0.53793,11.377,0.15119,-0.97164,-0.1818,207.91,0.56394,-0.066262,0.82315,30.867,#7.14.1,-0.82059,0.067022,0.56758,-65.836,-0.092778,-0.99555,-0.016577,197.58,0.56394,-0.066262,0.82315,30.867,#7.14.2,-0.82059,0.067022,0.56758,-65.836,-0.092778,-0.99555,-0.016577,197.58,0.56394,-0.066262,0.82315,30.867,#7.15.1,-0.7191,0.45069,0.52894,-126.21,-0.40603,-0.89022,0.20651,166.89,0.56394,-0.066262,0.82315,30.867,#7.15.2,-0.7191,0.45069,0.52894,-126.21,-0.40603,-0.89022,0.20651,166.89,0.56394,-0.066262,0.82315,30.867,#7.16.1,-0.50663,0.7594,0.40822,-175.3,-0.65215,-0.64725,0.39468,114.59,0.56394,-0.066262,0.82315,30.867,#7.16.2,-0.50663,0.7594,0.40822,-175.3,-0.65215,-0.64725,0.39468,114.59,0.56394,-0.066262,0.82315,30.867,#7.17.1,-0.32333,0.89948,0.29392,-205.34,-0.75989,-0.4319,0.48583,47.002,0.56394,-0.066262,0.82315,30.867,#7.17.2,-0.32333,0.89948,0.29392,-205.34,-0.75989,-0.4319,0.48583,47.002,0.56394,-0.066262,0.82315,30.867,#7.18.1,-0.0079177,0.9963,0.085624,-209.57,-0.82578,-0.054804,0.56133,-25.733,0.56394,-0.066262,0.82315,30.867,#7.18.2,-0.0079177,0.9963,0.085624,-209.57,-0.82578,-0.054804,0.56133,-25.733,0.56394,-0.066262,0.82315,30.867,#13,1,0,0,-40.813,0,1,0,-1.5052,0,0,1,70.377 |
| 4973 | | |
| 4974 | | > select clear |
| 4975 | | |
| 4976 | | > select add #13 |
| 4977 | | |
| 4978 | | 112125 atoms, 113781 bonds, 14157 residues, 82 models selected |
| 4979 | | |
| 4980 | | > view matrix models #13,1,0,0,-38.504,0,1,0,-1.5052,0,0,1,70.089 |
| 4981 | | |
| 4982 | | > select clear |
| 4983 | | |
| 4984 | | > view orient |
| 4985 | | |
| 4986 | | > show #!3 models |
| 4987 | | |
| 4988 | | > show #!6 models |
| 4989 | | |
| 4990 | | > show #!7 models |
| 4991 | | |
| 4992 | | > hide #!6 models |
| 4993 | | |
| 4994 | | > show #!9 models |
| 4995 | | |
| 4996 | | > show #!12 models |
| 4997 | | |
| 4998 | | > show #!15 models |
| 4999 | | |
| 5000 | | > view orient |
| 5001 | | |
| 5002 | | > save "C:/Users/Jack Botting/Documents/Chimera/Saved Sessions/pylori flgY |
| 5003 | | > pflA pflB.cxs" |
| 5004 | | |
| 5005 | | > turn x -90 |
| 5006 | | |
| 5007 | | > select add #1.1 |
| 5008 | | |
| 5009 | | 4 models selected |
| 5010 | | |
| 5011 | | > select clear |
| 5012 | | |
| 5013 | | > select add #7 |
| 5014 | | |
| 5015 | | 57096 atoms, 57744 bonds, 7164 residues, 55 models selected |
| 5016 | | |
| 5017 | | > view matrix models #7,1,0,0,-39.329,0,1,0,-3.6426,0,0,1,8.9225 |
| 5018 | | |
| 5019 | | > view orient |
| 5020 | | |
| 5021 | | > hide #!1 models |
| 5022 | | |
| 5023 | | > show #!1.2 models |
| 5024 | | |
| 5025 | | > hide #!1.1 models |
| 5026 | | |
| 5027 | | > view orient |
| 5028 | | |
| 5029 | | > select clear |
| 5030 | | |
| 5031 | | > save "C:/Users/Jack Botting/Documents/Chimera/Saved Sessions/pylori flgY |
| 5032 | | > pflA pflB.cxs" |
| 5033 | | |
| 5034 | | ——— End of log from Mon Jun 3 16:15:41 2024 ——— |
| 5035 | | |
| 5036 | | opened ChimeraX session |
| 5037 | | |
| 5038 | | > hide #!1 models |
| 5039 | | |
| 5040 | | > show #18 models |
| 5041 | | |
| 5042 | | > hide #18/A,B cartoon' |
| 5043 | | |
| 5044 | | Expected a collection of one of 'atoms', 'bonds', 'cartoons', 'models', |
| 5045 | | 'pbonds', 'pseudobonds', 'ribbons', or 'surfaces' or a keyword |
| 5046 | | |
| 5047 | | > hide #18/A,B cartoons |
| 5048 | | |
| 5049 | | > view orient |
| 5050 | | |
| 5051 | | [Repeated 1 time(s)] |
| 5052 | | |
| 5053 | | > show #!1 models |
| 5054 | | |
| 5055 | | > show #!6 models |
| 5056 | | |
| 5057 | | > hide #18 models |
| 5058 | | |
| 5059 | | > select add #6 |
| 5060 | | |
| 5061 | | 2710 atoms, 2772 bonds, 331 residues, 1 model selected |
| 5062 | | |
| 5063 | | > hide #!15 models |
| 5064 | | |
| 5065 | | > hide #!13 models |
| 5066 | | |
| 5067 | | > hide #!12 models |
| 5068 | | |
| 5069 | | > hide #!3 models |
| 5070 | | |
| 5071 | | > ui mousemode right "translate selected models" |
| 5072 | | |
| 5073 | | > view matrix models |
| 5074 | | > #6,-0.37725,-0.44737,0.81089,24.268,-0.91985,0.28263,-0.27202,170.26,-0.10749,-0.84852,-0.51814,187.19 |
| 5075 | | |
| 5076 | | > view matrix models |
| 5077 | | > #6,-0.37725,-0.44737,0.81089,107.06,-0.91985,0.28263,-0.27202,188.71,-0.10749,-0.84852,-0.51814,107.82 |
| 5078 | | |
| 5079 | | > hide sel surfaces |
| 5080 | | |
| 5081 | | > view matrix models |
| 5082 | | > #6,-0.37725,-0.44737,0.81089,166.96,-0.91985,0.28263,-0.27202,14.919,-0.10749,-0.84852,-0.51814,85.961 |
| 5083 | | |
| 5084 | | > view matrix models |
| 5085 | | > #6,-0.37725,-0.44737,0.81089,165.76,-0.91985,0.28263,-0.27202,12.248,-0.10749,-0.84852,-0.51814,92.284 |
| 5086 | | |
| 5087 | | > view matrix models |
| 5088 | | > #6,-0.37725,-0.44737,0.81089,165.55,-0.91985,0.28263,-0.27202,14.538,-0.10749,-0.84852,-0.51814,65.62 |
| 5089 | | |
| 5090 | | > view matrix models |
| 5091 | | > #6,-0.37725,-0.44737,0.81089,178.07,-0.91985,0.28263,-0.27202,1.4718,-0.10749,-0.84852,-0.51814,52.601 |
| 5092 | | |
| 5093 | | > open "C:/Users/Jack Botting/Documents/alphafold |
| 5094 | | > results/pflAB/fold_pylori_pfla_pflc/fold_pylori_pfla_pflc_model_0.cif" |
| 5095 | | |
| 5096 | | Chain information for fold_pylori_pfla_pflc_model_0.cif #2 |
| 5097 | | --- |
| 5098 | | Chain | Description |
| 5099 | | A | . |
| 5100 | | B | . |
| 5101 | | |
| 5102 | | |
| 5103 | | > mmaker #2 to #9.18.1 |
| 5104 | | |
| 5105 | | Parameters |
| 5106 | | --- |
| 5107 | | Chain pairing | bb |
| 5108 | | Alignment algorithm | Needleman-Wunsch |
| 5109 | | Similarity matrix | BLOSUM-62 |
| 5110 | | SS fraction | 0.3 |
| 5111 | | Gap open (HH/SS/other) | 18/18/6 |
| 5112 | | Gap extend | 1 |
| 5113 | | SS matrix | | | H | S | O |
| 5114 | | ---|---|---|--- |
| 5115 | | H | 6 | -9 | -6 |
| 5116 | | S | | 6 | -6 |
| 5117 | | O | | | 4 |
| 5118 | | Iteration cutoff | 2 |
| 5119 | | |
| 5120 | | Matchmaker pflA 1, chain A (#9.18.1) with fold_pylori_pfla_pflc_model_0.cif, |
| 5121 | | chain A (#2), sequence alignment score = 3183.5 |
| 5122 | | RMSD between 89 pruned atom pairs is 0.293 angstroms; (across all 612 pairs: |
| 5123 | | 25.225) |
| 5124 | | |
| 5125 | | |
| 5126 | | > close #2 |
| 5127 | | |
| 5128 | | > view orient |
| 5129 | | |
| 5130 | | > ui tool show "Side View" |
| 5131 | | |
| 5132 | | > view matrix models |
| 5133 | | > #6,-0.37725,-0.44737,0.81089,178.41,-0.91985,0.28263,-0.27202,0.90513,-0.10749,-0.84852,-0.51814,52.601 |
| 5134 | | |
| 5135 | | > view matrix models |
| 5136 | | > #6,-0.37725,-0.44737,0.81089,178.38,-0.91985,0.28263,-0.27202,2.9904,-0.10749,-0.84852,-0.51814,52.808 |
| 5137 | | |
| 5138 | | > view matrix models |
| 5139 | | > #6,-0.37725,-0.44737,0.81089,178.85,-0.91985,0.28263,-0.27202,3.2499,-0.10749,-0.84852,-0.51814,53.36 |
| 5140 | | |
| 5141 | | > view matrix models |
| 5142 | | > #6,-0.37725,-0.44737,0.81089,182.4,-0.91985,0.28263,-0.27202,-78.627,-0.10749,-0.84852,-0.51814,44.028 |
| 5143 | | |
| 5144 | | > view matrix models |
| 5145 | | > #6,-0.37725,-0.44737,0.81089,161.35,-0.91985,0.28263,-0.27202,-73.059,-0.10749,-0.84852,-0.51814,40.963 |
| 5146 | | |
| 5147 | | > view matrix models |
| 5148 | | > #6,-0.37725,-0.44737,0.81089,162,-0.91985,0.28263,-0.27202,-73.712,-0.10749,-0.84852,-0.51814,42.155 |
| 5149 | | |
| 5150 | | > view matrix models |
| 5151 | | > #6,-0.37725,-0.44737,0.81089,165.22,-0.91985,0.28263,-0.27202,-74.73,-0.10749,-0.84852,-0.51814,46.859 |
| 5152 | | |
| 5153 | | > select clear |
| 5154 | | |
| 5155 | | > fitmap #6 inMap #1.2 shift false |
| 5156 | | |
| 5157 | | Fit molecule pflC (#6) to map HP-PflA-PflB-2.1A.mrc (#1.2) using 2710 atoms |
| 5158 | | average map value = 0.7647, steps = 64 |
| 5159 | | shifted from previous position = 5.68e-14 |
| 5160 | | rotated from previous position = 16.9 degrees |
| 5161 | | atoms outside contour = 1781, contour level = 0.78314 |
| 5162 | | |
| 5163 | | Position of pflC (#6) relative to HP-PflA-PflB-2.1A.mrc (#1.2) coordinates: |
| 5164 | | Matrix rotation and translation |
| 5165 | | -0.30285245 -0.68737158 0.66015204 -48.52526860 |
| 5166 | | -0.95285864 0.23180699 -0.19577011 -67.98025203 |
| 5167 | | -0.01846105 -0.68832103 -0.72517127 -19.67829116 |
| 5168 | | Axis -0.56000429 0.77154712 -0.30184472 |
| 5169 | | Axis point -52.76429963 0.00000000 -14.22503516 |
| 5170 | | Rotation angle (degrees) 153.91052268 |
| 5171 | | Shift along axis -19.33582070 |
| 5172 | | |
| 5173 | | |
| 5174 | | > fitmap #6 inMap #1.2 rotate false |
| 5175 | | |
| 5176 | | Fit molecule pflC (#6) to map HP-PflA-PflB-2.1A.mrc (#1.2) using 2710 atoms |
| 5177 | | average map value = 0.8716, steps = 44 |
| 5178 | | shifted from previous position = 5.91 |
| 5179 | | rotated from previous position = 0 degrees |
| 5180 | | atoms outside contour = 1645, contour level = 0.78314 |
| 5181 | | |
| 5182 | | Position of pflC (#6) relative to HP-PflA-PflB-2.1A.mrc (#1.2) coordinates: |
| 5183 | | Matrix rotation and translation |
| 5184 | | -0.30285245 -0.68737158 0.66015204 -46.93764496 |
| 5185 | | -0.95285864 0.23180699 -0.19577011 -68.13717407 |
| 5186 | | -0.01846105 -0.68832103 -0.72517127 -25.36694166 |
| 5187 | | Axis -0.56000429 0.77154712 -0.30184472 |
| 5188 | | Axis point -52.84953027 0.00000000 -17.39787428 |
| 5189 | | Rotation angle (degrees) 153.91052268 |
| 5190 | | Shift along axis -18.62888040 |
| 5191 | | |
| 5192 | | |
| 5193 | | > fitmap #6 inMap #1.2 |
| 5194 | | |
| 5195 | | Fit molecule pflC (#6) to map HP-PflA-PflB-2.1A.mrc (#1.2) using 2710 atoms |
| 5196 | | average map value = 2.92, steps = 368 |
| 5197 | | shifted from previous position = 22.4 |
| 5198 | | rotated from previous position = 81.3 degrees |
| 5199 | | atoms outside contour = 555, contour level = 0.78314 |
| 5200 | | |
| 5201 | | Position of pflC (#6) relative to HP-PflA-PflB-2.1A.mrc (#1.2) coordinates: |
| 5202 | | Matrix rotation and translation |
| 5203 | | -0.94371631 0.25400702 0.21184892 -46.09255130 |
| 5204 | | 0.14453894 0.89281185 -0.42660932 -54.17654056 |
| 5205 | | -0.29750298 -0.37197775 -0.87927501 -41.60541004 |
| 5206 | | Axis 0.10429077 0.97234449 -0.20897278 |
| 5207 | | Axis point -23.69126255 0.00000000 -23.81405425 |
| 5208 | | Rotation angle (degrees) 164.81601291 |
| 5209 | | Shift along axis -48.79089015 |
| 5210 | | |
| 5211 | | |
| 5212 | | > view matrix models |
| 5213 | | > #6,-0.96972,-0.024248,-0.24302,169.11,0.048713,0.95586,-0.28975,-61.215,0.23932,-0.29282,-0.92573,24.399 |
| 5214 | | |
| 5215 | | > view matrix models |
| 5216 | | > #6,-0.83191,0.48147,0.27588,164.23,0.43122,0.24802,0.86749,-38.79,0.34924,0.84064,-0.41395,8.0546 |
| 5217 | | |
| 5218 | | > view matrix models |
| 5219 | | > #6,-0.87725,-0.48004,-0.0014224,179.39,-0.12758,0.236,-0.96334,-53.719,0.46278,-0.84491,-0.26827,39.861 |
| 5220 | | |
| 5221 | | > view matrix models |
| 5222 | | > #6,-0.87725,-0.48004,-0.0014224,177.67,-0.12758,0.236,-0.96334,-75.32,0.46278,-0.84491,-0.26827,44.313 |
| 5223 | | |
| 5224 | | > fitmap #6 inMap #1.2 rotate false |
| 5225 | | |
| 5226 | | Fit molecule pflC (#6) to map HP-PflA-PflB-2.1A.mrc (#1.2) using 2710 atoms |
| 5227 | | average map value = 1.722, steps = 60 |
| 5228 | | shifted from previous position = 11.8 |
| 5229 | | rotated from previous position = 0 degrees |
| 5230 | | atoms outside contour = 1307, contour level = 0.78314 |
| 5231 | | |
| 5232 | | Position of pflC (#6) relative to HP-PflA-PflB-2.1A.mrc (#1.2) coordinates: |
| 5233 | | Matrix rotation and translation |
| 5234 | | -0.87724573 -0.48003942 -0.00142242 -31.82690333 |
| 5235 | | -0.12757774 0.23599581 -0.96334306 -63.00722732 |
| 5236 | | 0.46277834 -0.84490715 -0.26826866 -31.44548340 |
| 5237 | | Axis 0.19913251 -0.78048505 0.59261229 |
| 5238 | | Axis point -19.48872547 0.00000000 -43.21458388 |
| 5239 | | Rotation angle (degrees) 162.69971271 |
| 5240 | | Shift along axis 24.20344831 |
| 5241 | | |
| 5242 | | |
| 5243 | | > fitmap #6 inMap #1.2 shift false |
| 5244 | | |
| 5245 | | Fit molecule pflC (#6) to map HP-PflA-PflB-2.1A.mrc (#1.2) using 2710 atoms |
| 5246 | | average map value = 1.796, steps = 56 |
| 5247 | | shifted from previous position = 3.26e-14 |
| 5248 | | rotated from previous position = 9.35 degrees |
| 5249 | | atoms outside contour = 1250, contour level = 0.78314 |
| 5250 | | |
| 5251 | | Position of pflC (#6) relative to HP-PflA-PflB-2.1A.mrc (#1.2) coordinates: |
| 5252 | | Matrix rotation and translation |
| 5253 | | -0.85554718 -0.51036300 -0.08699756 -31.91291532 |
| 5254 | | -0.13260657 0.37845086 -0.91607336 -63.01025522 |
| 5255 | | 0.50045426 -0.77220756 -0.39146005 -31.61608246 |
| 5256 | | Axis 0.20174994 -0.82381195 0.52974601 |
| 5257 | | Axis point -18.43270312 0.00000000 -40.28574201 |
| 5258 | | Rotation angle (degrees) 159.11184496 |
| 5259 | | Shift along axis 28.72167879 |
| 5260 | | |
| 5261 | | |
| 5262 | | > view matrix models |
| 5263 | | > #6,-0.85555,-0.51036,-0.086998,180.5,-0.13261,0.37845,-0.91607,-80.249,0.50045,-0.77221,-0.39146,36.14 |
| 5264 | | |
| 5265 | | > fitmap #6 inMap #1.2 shift false |
| 5266 | | |
| 5267 | | Fit molecule pflC (#6) to map HP-PflA-PflB-2.1A.mrc (#1.2) using 2710 atoms |
| 5268 | | average map value = 1.261, steps = 88 |
| 5269 | | shifted from previous position = 1.03e-13 |
| 5270 | | rotated from previous position = 21.5 degrees |
| 5271 | | atoms outside contour = 1495, contour level = 0.78314 |
| 5272 | | |
| 5273 | | Position of pflC (#6) relative to HP-PflA-PflB-2.1A.mrc (#1.2) coordinates: |
| 5274 | | Matrix rotation and translation |
| 5275 | | -0.80394309 -0.58905015 -0.08182530 -33.13685232 |
| 5276 | | -0.35908216 0.59047996 -0.72276786 -73.30860251 |
| 5277 | | 0.47406272 -0.55168224 -0.68622969 -30.39146180 |
| 5278 | | Axis 0.27354726 -0.88880436 0.36769376 |
| 5279 | | Axis point -23.61741436 0.00000000 -34.45768777 |
| 5280 | | Rotation angle (degrees) 161.77696883 |
| 5281 | | Shift along axis 44.91775978 |
| 5282 | | |
| 5283 | | |
| 5284 | | > fitmap #6 inMap #1.2 rotate false |
| 5285 | | |
| 5286 | | Fit molecule pflC (#6) to map HP-PflA-PflB-2.1A.mrc (#1.2) using 2710 atoms |
| 5287 | | average map value = 1.655, steps = 72 |
| 5288 | | shifted from previous position = 12.3 |
| 5289 | | rotated from previous position = 0 degrees |
| 5290 | | atoms outside contour = 1246, contour level = 0.78314 |
| 5291 | | |
| 5292 | | Position of pflC (#6) relative to HP-PflA-PflB-2.1A.mrc (#1.2) coordinates: |
| 5293 | | Matrix rotation and translation |
| 5294 | | -0.80394309 -0.58905015 -0.08182530 -30.97954999 |
| 5295 | | -0.35908216 0.59047996 -0.72276786 -62.45119875 |
| 5296 | | 0.47406272 -0.55168224 -0.68622969 -35.68542061 |
| 5297 | | Axis 0.27354726 -0.88880436 0.36769376 |
| 5298 | | Axis point -20.75547151 0.00000000 -34.39256177 |
| 5299 | | Rotation angle (degrees) 161.77696883 |
| 5300 | | Shift along axis 33.91122049 |
| 5301 | | |
| 5302 | | |
| 5303 | | > view matrix models |
| 5304 | | > #6,-0.92898,0.17022,0.32866,171.62,-0.1264,0.68868,-0.71396,-70.114,-0.34787,-0.7048,-0.61826,31.402 |
| 5305 | | |
| 5306 | | > view matrix models |
| 5307 | | > #6,-0.92898,0.17022,0.32866,167.27,-0.1264,0.68868,-0.71396,-78.744,-0.34787,-0.7048,-0.61826,59.742 |
| 5308 | | |
| 5309 | | > view matrix models |
| 5310 | | > #6,-0.892,0.21544,0.39738,167.07,-0.26509,0.46276,-0.84592,-76.047,-0.36614,-0.8599,-0.35568,64.425 |
| 5311 | | |
| 5312 | | > view matrix models |
| 5313 | | > #6,-0.892,0.21544,0.39738,165.74,-0.26509,0.46276,-0.84592,-76.153,-0.36614,-0.8599,-0.35568,60.256 |
| 5314 | | |
| 5315 | | > fitmap #6 inMap #1.2 rotate false |
| 5316 | | |
| 5317 | | Fit molecule pflC (#6) to map HP-PflA-PflB-2.1A.mrc (#1.2) using 2710 atoms |
| 5318 | | average map value = 1.498, steps = 76 |
| 5319 | | shifted from previous position = 30.9 |
| 5320 | | rotated from previous position = 0 degrees |
| 5321 | | atoms outside contour = 1347, contour level = 0.78314 |
| 5322 | | |
| 5323 | | Position of pflC (#6) relative to HP-PflA-PflB-2.1A.mrc (#1.2) coordinates: |
| 5324 | | Matrix rotation and translation |
| 5325 | | -0.89200350 0.21544120 0.39738494 -49.29839561 |
| 5326 | | -0.26508574 0.46276321 -0.84591945 -60.14427182 |
| 5327 | | -0.36614104 -0.85990422 -0.35567603 -35.38181210 |
| 5328 | | Axis -0.01549970 0.84623693 -0.53258127 |
| 5329 | | Axis point -32.53055108 0.00000000 -29.60494458 |
| 5330 | | Rotation angle (degrees) 153.18378369 |
| 5331 | | Shift along axis -31.28850345 |
| 5332 | | |
| 5333 | | |
| 5334 | | > view matrix models |
| 5335 | | > #6,-0.892,0.21544,0.39738,164.74,-0.26509,0.46276,-0.84592,-74.836,-0.36614,-0.8599,-0.35568,55.972 |
| 5336 | | |
| 5337 | | > fitmap #6 inMap #1.2 shift false |
| 5338 | | |
| 5339 | | Fit molecule pflC (#6) to map HP-PflA-PflB-2.1A.mrc (#1.2) using 2710 atoms |
| 5340 | | average map value = 0.963, steps = 60 |
| 5341 | | shifted from previous position = 8.56e-14 |
| 5342 | | rotated from previous position = 23.7 degrees |
| 5343 | | atoms outside contour = 1815, contour level = 0.78314 |
| 5344 | | |
| 5345 | | Position of pflC (#6) relative to HP-PflA-PflB-2.1A.mrc (#1.2) coordinates: |
| 5346 | | Matrix rotation and translation |
| 5347 | | -0.92577832 0.29237105 0.23969485 -49.01968455 |
| 5348 | | -0.22793582 0.07418241 -0.97084612 -68.21238874 |
| 5349 | | -0.30162844 -0.95342336 -0.00203464 -9.95055506 |
| 5350 | | Axis 0.02319834 0.72076965 -0.69278637 |
| 5351 | | Axis point -28.82316026 0.00000000 -31.26620913 |
| 5352 | | Rotation angle (degrees) 157.94369601 |
| 5353 | | Shift along axis -43.40898577 |
| 5354 | | |
| 5355 | | |
| 5356 | | > select clear |
| 5357 | | |
| 5358 | | > view orient |
| 5359 | | |
| 5360 | | [Repeated 2 time(s)] |
| 5361 | | |
| 5362 | | > hide #!1 models |
| 5363 | | |
| 5364 | | > hide #!1.2 models |
| 5365 | | |
| 5366 | | > show #!1.1 models |
| 5367 | | |
| 5368 | | > hide #!1 models |
| 5369 | | |
| 5370 | | > show #!1 models |
| 5371 | | |
| 5372 | | > show #7 cartoons |
| 5373 | | |
| 5374 | | > hide #!1 models |
| 5375 | | |
| 5376 | | > show #!1 models |
| 5377 | | |
| 5378 | | > hide #!1.1 models |
| 5379 | | |
| 5380 | | > show #!1.2 models |
| 5381 | | |
| 5382 | | > view orient |
| 5383 | | |
| 5384 | | > rename #1.1 FlgY-sym13-2.1A.mrc |
| 5385 | | |
| 5386 | | > hide #!1.2 models |
| 5387 | | |
| 5388 | | > view orient |
| 5389 | | |
| 5390 | | > show #!1.1 models |
| 5391 | | |
| 5392 | | > sym #6 C18 center #1.1 |
| 5393 | | |
| 5394 | | Made 18 graphical clones for pflC symmetry C18 |
| 5395 | | |
| 5396 | | > hide #!1.1 models |
| 5397 | | |
| 5398 | | > show #!1.2 models |
| 5399 | | |
| 5400 | | > hide #!6 models |
| 5401 | | |
| 5402 | | > view orient |
| 5403 | | |
| 5404 | | > hide #!1 models |
| 5405 | | |
| 5406 | | > show #!6 models |
| 5407 | | |
| 5408 | | > show #!3 models |
| 5409 | | |
| 5410 | | > show #!12 models |
| 5411 | | |
| 5412 | | > show #!13 models |
| 5413 | | |
| 5414 | | > show #!15 models |
| 5415 | | |
| 5416 | | > save "C:/Users/Jack Botting/Documents/Chimera/Saved Sessions/pylori flgY |
| 5417 | | > pflA pflB.cxs" |
| 5418 | | |
| 5419 | | ——— End of log from Tue Jun 4 09:30:10 2024 ——— |
| 5420 | | |
| 5421 | | opened ChimeraX session |
| 5422 | | |
| 5423 | | > color #6 #aa0000ff |
| 5424 | | |
| 5425 | | > color #6 #aa007fff |
| 5426 | | |
| 5427 | | > color #6 #aa0003ff |
| 5428 | | |
| 5429 | | > color #6 #004daaff |
| 5430 | | |
| 5431 | | > color #6 #6300aaff |
| 5432 | | |
| 5433 | | > color #6 #001aaaff |
| 5434 | | |
| 5435 | | > color #6 #00158aff |
| 5436 | | |
| 5437 | | > view orient |
| 5438 | | |
| 5439 | | > save "C:/Users/Jack Botting/Documents/Chimera/Saved Sessions/pylori flgY |
| 5440 | | > pflA pflB.cxs" |
| 5441 | | |
| 5442 | | > set bgColor white |
| 5443 | | |
| 5444 | | > set bgColor black |
| 5445 | | |
| 5446 | | > set bgColor gray |
| 5447 | | |
| 5448 | | > set bgColor black |
| 5449 | | |
| 5450 | | > view orient |
| 5451 | | |
| 5452 | | > show #!1 models |
| 5453 | | |
| 5454 | | > ui tool show "Side View" |
| 5455 | | |
| 5456 | | > hide #!6 models |
| 5457 | | |
| 5458 | | > hide #!7 models |
| 5459 | | |
| 5460 | | > hide #!9 models |
| 5461 | | |
| 5462 | | > hide #!12 models |
| 5463 | | |
| 5464 | | > hide #!13 models |
| 5465 | | |
| 5466 | | > hide #!15 models |
| 5467 | | |
| 5468 | | > fitmap #3.2 inMap #1.2 |
| 5469 | | |
| 5470 | | Fit molecule pflB 2 (#3.2) to map HP-PflA-PflB-2.1A.mrc (#1.2) using 5767 |
| 5471 | | atoms |
| 5472 | | average map value = 3.673, steps = 132 |
| 5473 | | shifted from previous position = 2.15 |
| 5474 | | rotated from previous position = 21.6 degrees |
| 5475 | | atoms outside contour = 1634, contour level = 0.78314 |
| 5476 | | |
| 5477 | | Position of pflB 2 (#3.2) relative to HP-PflA-PflB-2.1A.mrc (#1.2) |
| 5478 | | coordinates: |
| 5479 | | Matrix rotation and translation |
| 5480 | | 0.80291160 -0.52157229 0.28860930 60.18065259 |
| 5481 | | -0.56854588 -0.81555340 0.10783445 40.94646428 |
| 5482 | | 0.17913284 -0.25066916 -0.95135505 -40.20640584 |
| 5483 | | Axis -0.94897880 0.28979025 -0.12434167 |
| 5484 | | Axis point 0.00000000 27.39177205 -26.68750735 |
| 5485 | | Rotation angle (degrees) 169.11203642 |
| 5486 | | Shift along axis -40.24494598 |
| 5487 | | |
| 5488 | | |
| 5489 | | > fitmap #3.2 inMap #1.2 |
| 5490 | | |
| 5491 | | Fit molecule pflB 2 (#3.2) to map HP-PflA-PflB-2.1A.mrc (#1.2) using 5767 |
| 5492 | | atoms |
| 5493 | | average map value = 3.673, steps = 80 |
| 5494 | | shifted from previous position = 0.0367 |
| 5495 | | rotated from previous position = 0.0746 degrees |
| 5496 | | atoms outside contour = 1631, contour level = 0.78314 |
| 5497 | | |
| 5498 | | Position of pflB 2 (#3.2) relative to HP-PflA-PflB-2.1A.mrc (#1.2) |
| 5499 | | coordinates: |
| 5500 | | Matrix rotation and translation |
| 5501 | | 0.80327839 -0.52166751 0.28741411 60.12735411 |
| 5502 | | -0.56827441 -0.81577700 0.10757370 40.95182051 |
| 5503 | | 0.17834811 -0.24974171 -0.95174632 -40.19180750 |
| 5504 | | Axis -0.94907957 0.28969450 -0.12379444 |
| 5505 | | Axis point 0.00000000 27.39239640 -26.64929415 |
| 5506 | | Rotation angle (degrees) 169.14972727 |
| 5507 | | Shift along axis -40.22660404 |
| 5508 | | |
| 5509 | | |
| 5510 | | > fitmap #3.2 inMap #1.2 |
| 5511 | | |
| 5512 | | Fit molecule pflB 2 (#3.2) to map HP-PflA-PflB-2.1A.mrc (#1.2) using 5767 |
| 5513 | | atoms |
| 5514 | | average map value = 3.673, steps = 80 |
| 5515 | | shifted from previous position = 0.024 |
| 5516 | | rotated from previous position = 0.0303 degrees |
| 5517 | | atoms outside contour = 1631, contour level = 0.78314 |
| 5518 | | |
| 5519 | | Position of pflB 2 (#3.2) relative to HP-PflA-PflB-2.1A.mrc (#1.2) |
| 5520 | | coordinates: |
| 5521 | | Matrix rotation and translation |
| 5522 | | 0.80354108 -0.52137777 0.28720546 60.10572930 |
| 5523 | | -0.56799800 -0.81591769 0.10796587 40.96659533 |
| 5524 | | 0.17804501 -0.24988714 -0.95176490 -40.18454753 |
| 5525 | | Axis -0.94914803 0.28953069 -0.12365273 |
| 5526 | | Axis point 0.00000000 27.38819739 -26.64343560 |
| 5527 | | Rotation angle (degrees) 169.13399735 |
| 5528 | | Shift along axis -40.21921879 |
| 5529 | | |
| 5530 | | |
| 5531 | | > fitmap #3.2 inMap #1.2 |
| 5532 | | |
| 5533 | | Fit molecule pflB 2 (#3.2) to map HP-PflA-PflB-2.1A.mrc (#1.2) using 5767 |
| 5534 | | atoms |
| 5535 | | average map value = 3.673, steps = 64 |
| 5536 | | shifted from previous position = 0.0348 |
| 5537 | | rotated from previous position = 0.0278 degrees |
| 5538 | | atoms outside contour = 1636, contour level = 0.78314 |
| 5539 | | |
| 5540 | | Position of pflB 2 (#3.2) relative to HP-PflA-PflB-2.1A.mrc (#1.2) |
| 5541 | | coordinates: |
| 5542 | | Matrix rotation and translation |
| 5543 | | 0.80346674 -0.52137448 0.28741934 60.14388335 |
| 5544 | | -0.56797181 -0.81599222 0.10753953 40.96691971 |
| 5545 | | 0.17846358 -0.24965051 -0.95174860 -40.19178707 |
| 5546 | | Axis -0.94913002 0.28951867 -0.12381903 |
| 5547 | | Axis point 0.00000000 27.39728385 -26.65040903 |
| 5548 | | Rotation angle (degrees) 169.15416414 |
| 5549 | | Shift along axis -40.24716905 |
| 5550 | | |
| 5551 | | |
| 5552 | | > fitmap #3.2 inMap #1.2 |
| 5553 | | |
| 5554 | | Fit molecule pflB 2 (#3.2) to map HP-PflA-PflB-2.1A.mrc (#1.2) using 5767 |
| 5555 | | atoms |
| 5556 | | average map value = 3.673, steps = 76 |
| 5557 | | shifted from previous position = 0.0336 |
| 5558 | | rotated from previous position = 0.0166 degrees |
| 5559 | | atoms outside contour = 1633, contour level = 0.78314 |
| 5560 | | |
| 5561 | | Position of pflB 2 (#3.2) relative to HP-PflA-PflB-2.1A.mrc (#1.2) |
| 5562 | | coordinates: |
| 5563 | | Matrix rotation and translation |
| 5564 | | 0.80342788 -0.52130240 0.28765860 60.12353808 |
| 5565 | | -0.56798849 -0.81596225 0.10767872 40.95156780 |
| 5566 | | 0.17858538 -0.24989885 -0.95166058 -40.21197705 |
| 5567 | | Axis -0.94911865 0.28951319 -0.12391895 |
| 5568 | | Axis point 0.00000000 27.38281428 -26.66426324 |
| 5569 | | Rotation angle (degrees) 169.14212239 |
| 5570 | | Shift along axis -40.22532595 |
| 5571 | | |
| 5572 | | |
| 5573 | | > fitmap #3.2 inMap #1.2 |
| 5574 | | |
| 5575 | | Fit molecule pflB 2 (#3.2) to map HP-PflA-PflB-2.1A.mrc (#1.2) using 5767 |
| 5576 | | atoms |
| 5577 | | average map value = 3.673, steps = 84 |
| 5578 | | shifted from previous position = 0.0115 |
| 5579 | | rotated from previous position = 0.0325 degrees |
| 5580 | | atoms outside contour = 1631, contour level = 0.78314 |
| 5581 | | |
| 5582 | | Position of pflB 2 (#3.2) relative to HP-PflA-PflB-2.1A.mrc (#1.2) |
| 5583 | | coordinates: |
| 5584 | | Matrix rotation and translation |
| 5585 | | 0.80325146 -0.52136987 0.28802878 60.12732889 |
| 5586 | | -0.56821419 -0.81576401 0.10798956 40.95545529 |
| 5587 | | 0.17866101 -0.25040481 -0.95151337 -40.20604415 |
| 5588 | | Axis -0.94906953 0.28961845 -0.12404915 |
| 5589 | | Axis point 0.00000000 27.38373734 -26.67254520 |
| 5590 | | Rotation angle (degrees) 169.11644776 |
| 5591 | | Shift along axis -40.21603469 |
| 5592 | | |
| 5593 | | |
| 5594 | | > show #!9 models |
| 5595 | | |
| 5596 | | > view orient |
| 5597 | | |
| 5598 | | > hide #!3 models |
| 5599 | | |
| 5600 | | > show #!3 models |
| 5601 | | |
| 5602 | | > hide #!1 models |
| 5603 | | |
| 5604 | | > show #!6 models |
| 5605 | | |
| 5606 | | > show #!7 models |
| 5607 | | |
| 5608 | | > show #!12 models |
| 5609 | | |
| 5610 | | > show #!13 models |
| 5611 | | |
| 5612 | | > show #!15 models |
| 5613 | | |
| 5614 | | > view orient |
| 5615 | | |
| 5616 | | [Repeated 1 time(s)] |
| 5617 | | |
| 5618 | | > open "C:/Users/Jack Botting/Documents/alphafold |
| 5619 | | > results/fold_pylori_flgy_pfla2_nosig(1)/fold_pylori_flgy_pfla2_nosig_model_0.cif" |
| 5620 | | |
| 5621 | | Chain information for fold_pylori_flgy_pfla2_nosig_model_0.cif #2 |
| 5622 | | --- |
| 5623 | | Chain | Description |
| 5624 | | A B | . |
| 5625 | | C D | . |
| 5626 | | |
| 5627 | | |
| 5628 | | > hide #2,A,B,C cartoon |
| 5629 | | |
| 5630 | | Expected a collection of one of 'atoms', 'bonds', 'cartoons', 'models', |
| 5631 | | 'pbonds', 'pseudobonds', 'ribbons', or 'surfaces' or a keyword |
| 5632 | | |
| 5633 | | > hide #2/A,B,C cartoons |
| 5634 | | |
| 5635 | | > mmaker #2/D to #9.10.1 |
| 5636 | | |
| 5637 | | Parameters |
| 5638 | | --- |
| 5639 | | Chain pairing | bb |
| 5640 | | Alignment algorithm | Needleman-Wunsch |
| 5641 | | Similarity matrix | BLOSUM-62 |
| 5642 | | SS fraction | 0.3 |
| 5643 | | Gap open (HH/SS/other) | 18/18/6 |
| 5644 | | Gap extend | 1 |
| 5645 | | SS matrix | | | H | S | O |
| 5646 | | ---|---|---|--- |
| 5647 | | H | 6 | -9 | -6 |
| 5648 | | S | | 6 | -6 |
| 5649 | | O | | | 4 |
| 5650 | | Iteration cutoff | 2 |
| 5651 | | |
| 5652 | | Matchmaker pflA 1, chain A (#9.10.1) with |
| 5653 | | fold_pylori_flgy_pfla2_nosig_model_0.cif, chain D (#2), sequence alignment |
| 5654 | | score = 3174.5 |
| 5655 | | RMSD between 277 pruned atom pairs is 0.741 angstroms; (across all 612 pairs: |
| 5656 | | 11.168) |
| 5657 | | |
| 5658 | | |
| 5659 | | > mmaker #2/D to #9.9.1 |
| 5660 | | |
| 5661 | | Parameters |
| 5662 | | --- |
| 5663 | | Chain pairing | bb |
| 5664 | | Alignment algorithm | Needleman-Wunsch |
| 5665 | | Similarity matrix | BLOSUM-62 |
| 5666 | | SS fraction | 0.3 |
| 5667 | | Gap open (HH/SS/other) | 18/18/6 |
| 5668 | | Gap extend | 1 |
| 5669 | | SS matrix | | | H | S | O |
| 5670 | | ---|---|---|--- |
| 5671 | | H | 6 | -9 | -6 |
| 5672 | | S | | 6 | -6 |
| 5673 | | O | | | 4 |
| 5674 | | Iteration cutoff | 2 |
| 5675 | | |
| 5676 | | Matchmaker pflA 1, chain A (#9.9.1) with |
| 5677 | | fold_pylori_flgy_pfla2_nosig_model_0.cif, chain D (#2), sequence alignment |
| 5678 | | score = 3170.9 |
| 5679 | | RMSD between 292 pruned atom pairs is 0.771 angstroms; (across all 612 pairs: |
| 5680 | | 7.930) |
| 5681 | | |
| 5682 | | |
| 5683 | | > show #!1 models |
| 5684 | | |
| 5685 | | > hide #!1 models |
| 5686 | | |
| 5687 | | > show #!1 models |
| 5688 | | |
| 5689 | | > mmaker #2/D to #9.1.1 |
| 5690 | | |
| 5691 | | Parameters |
| 5692 | | --- |
| 5693 | | Chain pairing | bb |
| 5694 | | Alignment algorithm | Needleman-Wunsch |
| 5695 | | Similarity matrix | BLOSUM-62 |
| 5696 | | SS fraction | 0.3 |
| 5697 | | Gap open (HH/SS/other) | 18/18/6 |
| 5698 | | Gap extend | 1 |
| 5699 | | SS matrix | | | H | S | O |
| 5700 | | ---|---|---|--- |
| 5701 | | H | 6 | -9 | -6 |
| 5702 | | S | | 6 | -6 |
| 5703 | | O | | | 4 |
| 5704 | | Iteration cutoff | 2 |
| 5705 | | |
| 5706 | | Matchmaker pflA 1, chain A (#9.1.1) with |
| 5707 | | fold_pylori_flgy_pfla2_nosig_model_0.cif, chain D (#2), sequence alignment |
| 5708 | | score = 3170.9 |
| 5709 | | RMSD between 292 pruned atom pairs is 0.771 angstroms; (across all 612 pairs: |
| 5710 | | 7.930) |
| 5711 | | |
| 5712 | | |
| 5713 | | > close #2 |
| 5714 | | |
| 5715 | | > hide #!1 models |
| 5716 | | |
| 5717 | | > hide #!3.2 models |
| 5718 | | |
| 5719 | | > hide #!6 models |
| 5720 | | |
| 5721 | | > hide #!3 models |
| 5722 | | |
| 5723 | | > hide #!7 models |
| 5724 | | |
| 5725 | | > hide #!9 models |
| 5726 | | |
| 5727 | | > hide #!12 models |
| 5728 | | |
| 5729 | | > hide #!13 models |
| 5730 | | |
| 5731 | | > hide #!15 models |
| 5732 | | |
| 5733 | | > open "C:/Users/Jack Botting/Documents/alphafold |
| 5734 | | > results/fold_pylori_flgy_pfla2_nosig(1)/fold_pylori_flgy_pfla2_nosig_model_4.cif" |
| 5735 | | |
| 5736 | | Chain information for fold_pylori_flgy_pfla2_nosig_model_4.cif #2 |
| 5737 | | --- |
| 5738 | | Chain | Description |
| 5739 | | A B | . |
| 5740 | | C D | . |
| 5741 | | |
| 5742 | | |
| 5743 | | > open "C:/Users/Jack Botting/Documents/alphafold |
| 5744 | | > results/fold_pylori_flgy_pfla2_nosig(1)/fold_pylori_flgy_pfla2_nosig_model_0.cif" |
| 5745 | | |
| 5746 | | Chain information for fold_pylori_flgy_pfla2_nosig_model_0.cif #4 |
| 5747 | | --- |
| 5748 | | Chain | Description |
| 5749 | | A B | . |
| 5750 | | C D | . |
| 5751 | | |
| 5752 | | |
| 5753 | | > open "C:/Users/Jack Botting/Documents/alphafold |
| 5754 | | > results/fold_pylori_flgy_pfla2_nosig(1)/fold_pylori_flgy_pfla2_nosig_model_1.cif" |
| 5755 | | |
| 5756 | | Chain information for fold_pylori_flgy_pfla2_nosig_model_1.cif #5 |
| 5757 | | --- |
| 5758 | | Chain | Description |
| 5759 | | A B | . |
| 5760 | | C D | . |
| 5761 | | |
| 5762 | | |
| 5763 | | > open "C:/Users/Jack Botting/Documents/alphafold |
| 5764 | | > results/fold_pylori_flgy_pfla2_nosig(1)/fold_pylori_flgy_pfla2_nosig_model_2.cif" |
| 5765 | | |
| 5766 | | Chain information for fold_pylori_flgy_pfla2_nosig_model_2.cif #8 |
| 5767 | | --- |
| 5768 | | Chain | Description |
| 5769 | | A B | . |
| 5770 | | C D | . |
| 5771 | | |
| 5772 | | |
| 5773 | | > open "C:/Users/Jack Botting/Documents/alphafold |
| 5774 | | > results/fold_pylori_flgy_pfla2_nosig(1)/fold_pylori_flgy_pfla2_nosig_model_3.cif" |
| 5775 | | |
| 5776 | | Chain information for fold_pylori_flgy_pfla2_nosig_model_3.cif #10 |
| 5777 | | --- |
| 5778 | | Chain | Description |
| 5779 | | A B | . |
| 5780 | | C D | . |
| 5781 | | |
| 5782 | | |
| 5783 | | > mmaker #4,5,8,10 to #2 |
| 5784 | | |
| 5785 | | Parameters |
| 5786 | | --- |
| 5787 | | Chain pairing | bb |
| 5788 | | Alignment algorithm | Needleman-Wunsch |
| 5789 | | Similarity matrix | BLOSUM-62 |
| 5790 | | SS fraction | 0.3 |
| 5791 | | Gap open (HH/SS/other) | 18/18/6 |
| 5792 | | Gap extend | 1 |
| 5793 | | SS matrix | | | H | S | O |
| 5794 | | ---|---|---|--- |
| 5795 | | H | 6 | -9 | -6 |
| 5796 | | S | | 6 | -6 |
| 5797 | | O | | | 4 |
| 5798 | | Iteration cutoff | 2 |
| 5799 | | |
| 5800 | | Matchmaker fold_pylori_flgy_pfla2_nosig_model_4.cif, chain C (#2) with |
| 5801 | | fold_pylori_flgy_pfla2_nosig_model_0.cif, chain C (#4), sequence alignment |
| 5802 | | score = 4034.6 |
| 5803 | | RMSD between 143 pruned atom pairs is 1.084 angstroms; (across all 781 pairs: |
| 5804 | | 15.051) |
| 5805 | | |
| 5806 | | Matchmaker fold_pylori_flgy_pfla2_nosig_model_4.cif, chain D (#2) with |
| 5807 | | fold_pylori_flgy_pfla2_nosig_model_1.cif, chain C (#5), sequence alignment |
| 5808 | | score = 4037.6 |
| 5809 | | RMSD between 491 pruned atom pairs is 0.943 angstroms; (across all 781 pairs: |
| 5810 | | 22.995) |
| 5811 | | |
| 5812 | | Matchmaker fold_pylori_flgy_pfla2_nosig_model_4.cif, chain D (#2) with |
| 5813 | | fold_pylori_flgy_pfla2_nosig_model_2.cif, chain C (#8), sequence alignment |
| 5814 | | score = 4026.2 |
| 5815 | | RMSD between 473 pruned atom pairs is 1.081 angstroms; (across all 781 pairs: |
| 5816 | | 3.295) |
| 5817 | | |
| 5818 | | Matchmaker fold_pylori_flgy_pfla2_nosig_model_4.cif, chain D (#2) with |
| 5819 | | fold_pylori_flgy_pfla2_nosig_model_3.cif, chain D (#10), sequence alignment |
| 5820 | | score = 4011.8 |
| 5821 | | RMSD between 455 pruned atom pairs is 1.046 angstroms; (across all 781 pairs: |
| 5822 | | 7.826) |
| 5823 | | |
| 5824 | | |
| 5825 | | > hide #2 models |
| 5826 | | |
| 5827 | | > hide #8 models |
| 5828 | | |
| 5829 | | > hide #10 models |
| 5830 | | |
| 5831 | | > hide #5 models |
| 5832 | | |
| 5833 | | > show #5 models |
| 5834 | | |
| 5835 | | > show #2 models |
| 5836 | | |
| 5837 | | > hide #4 models |
| 5838 | | |
| 5839 | | > show #8 models |
| 5840 | | |
| 5841 | | > show #10 models |
| 5842 | | |
| 5843 | | > show #4 models |
| 5844 | | |
| 5845 | | > select add #4 |
| 5846 | | |
| 5847 | | 15878 atoms, 16162 bonds, 1960 residues, 1 model selected |
| 5848 | | |
| 5849 | | > ui mousemode right "translate selected models" |
| 5850 | | |
| 5851 | | > view matrix models |
| 5852 | | > #4,-0.48287,0.82725,0.2872,-23.127,-0.86081,-0.50862,0.017761,-16.209,0.16077,-0.23865,0.9577,-76.601 |
| 5853 | | |
| 5854 | | > select clear |
| 5855 | | |
| 5856 | | > mmaker #4/D to #4/C |
| 5857 | | |
| 5858 | | Must use different reference and match structures |
| 5859 | | |
| 5860 | | > split #4 |
| 5861 | | |
| 5862 | | Split fold_pylori_flgy_pfla2_nosig_model_0.cif (#4) into 4 models |
| 5863 | | Chain information for fold_pylori_flgy_pfla2_nosig_model_0.cif A #4.1 |
| 5864 | | --- |
| 5865 | | Chain | Description |
| 5866 | | A | No description available |
| 5867 | | |
| 5868 | | Chain information for fold_pylori_flgy_pfla2_nosig_model_0.cif B #4.2 |
| 5869 | | --- |
| 5870 | | Chain | Description |
| 5871 | | B | No description available |
| 5872 | | |
| 5873 | | Chain information for fold_pylori_flgy_pfla2_nosig_model_0.cif C #4.3 |
| 5874 | | --- |
| 5875 | | Chain | Description |
| 5876 | | C | No description available |
| 5877 | | |
| 5878 | | Chain information for fold_pylori_flgy_pfla2_nosig_model_0.cif D #4.4 |
| 5879 | | --- |
| 5880 | | Chain | Description |
| 5881 | | D | No description available |
| 5882 | | |
| 5883 | | |
| 5884 | | > mmaker #4.3 to #4.4 |
| 5885 | | |
| 5886 | | Parameters |
| 5887 | | --- |
| 5888 | | Chain pairing | bb |
| 5889 | | Alignment algorithm | Needleman-Wunsch |
| 5890 | | Similarity matrix | BLOSUM-62 |
| 5891 | | SS fraction | 0.3 |
| 5892 | | Gap open (HH/SS/other) | 18/18/6 |
| 5893 | | Gap extend | 1 |
| 5894 | | SS matrix | | | H | S | O |
| 5895 | | ---|---|---|--- |
| 5896 | | H | 6 | -9 | -6 |
| 5897 | | S | | 6 | -6 |
| 5898 | | O | | | 4 |
| 5899 | | Iteration cutoff | 2 |
| 5900 | | |
| 5901 | | Matchmaker fold_pylori_flgy_pfla2_nosig_model_0.cif D, chain D (#4.4) with |
| 5902 | | fold_pylori_flgy_pfla2_nosig_model_0.cif C, chain C (#4.3), sequence alignment |
| 5903 | | score = 4058 |
| 5904 | | RMSD between 624 pruned atom pairs is 0.804 angstroms; (across all 781 pairs: |
| 5905 | | 1.684) |
| 5906 | | |
| 5907 | | |
| 5908 | | > close #4 |
| 5909 | | |
| 5910 | | > split #5 |
| 5911 | | |
| 5912 | | Split fold_pylori_flgy_pfla2_nosig_model_1.cif (#5) into 4 models |
| 5913 | | Chain information for fold_pylori_flgy_pfla2_nosig_model_1.cif A #5.1 |
| 5914 | | --- |
| 5915 | | Chain | Description |
| 5916 | | A | No description available |
| 5917 | | |
| 5918 | | Chain information for fold_pylori_flgy_pfla2_nosig_model_1.cif B #5.2 |
| 5919 | | --- |
| 5920 | | Chain | Description |
| 5921 | | B | No description available |
| 5922 | | |
| 5923 | | Chain information for fold_pylori_flgy_pfla2_nosig_model_1.cif C #5.3 |
| 5924 | | --- |
| 5925 | | Chain | Description |
| 5926 | | C | No description available |
| 5927 | | |
| 5928 | | Chain information for fold_pylori_flgy_pfla2_nosig_model_1.cif D #5.4 |
| 5929 | | --- |
| 5930 | | Chain | Description |
| 5931 | | D | No description available |
| 5932 | | |
| 5933 | | |
| 5934 | | > mmaker #5e.3 to #5.4 |
| 5935 | | |
| 5936 | | > matchmaker #5e.3 to #5.4 |
| 5937 | | |
| 5938 | | Missing or invalid "matchAtoms" argument: invalid atoms specifier |
| 5939 | | |
| 5940 | | > hide #8 models |
| 5941 | | |
| 5942 | | > hide #10 models |
| 5943 | | |
| 5944 | | > hide #2 models |
| 5945 | | |
| 5946 | | > mmaker #5.3 to #5.4 |
| 5947 | | |
| 5948 | | Parameters |
| 5949 | | --- |
| 5950 | | Chain pairing | bb |
| 5951 | | Alignment algorithm | Needleman-Wunsch |
| 5952 | | Similarity matrix | BLOSUM-62 |
| 5953 | | SS fraction | 0.3 |
| 5954 | | Gap open (HH/SS/other) | 18/18/6 |
| 5955 | | Gap extend | 1 |
| 5956 | | SS matrix | | | H | S | O |
| 5957 | | ---|---|---|--- |
| 5958 | | H | 6 | -9 | -6 |
| 5959 | | S | | 6 | -6 |
| 5960 | | O | | | 4 |
| 5961 | | Iteration cutoff | 2 |
| 5962 | | |
| 5963 | | Matchmaker fold_pylori_flgy_pfla2_nosig_model_1.cif D, chain D (#5.4) with |
| 5964 | | fold_pylori_flgy_pfla2_nosig_model_1.cif C, chain C (#5.3), sequence alignment |
| 5965 | | score = 4058.6 |
| 5966 | | RMSD between 553 pruned atom pairs is 0.951 angstroms; (across all 781 pairs: |
| 5967 | | 4.311) |
| 5968 | | |
| 5969 | | |
| 5970 | | > show #!9 models |
| 5971 | | |
| 5972 | | > select ~sel & ##selected |
| 5973 | | |
| 5974 | | Nothing selected |
| 5975 | | |
| 5976 | | > mmaker #5.3 to #9.1.1 |
| 5977 | | |
| 5978 | | Parameters |
| 5979 | | --- |
| 5980 | | Chain pairing | bb |
| 5981 | | Alignment algorithm | Needleman-Wunsch |
| 5982 | | Similarity matrix | BLOSUM-62 |
| 5983 | | SS fraction | 0.3 |
| 5984 | | Gap open (HH/SS/other) | 18/18/6 |
| 5985 | | Gap extend | 1 |
| 5986 | | SS matrix | | | H | S | O |
| 5987 | | ---|---|---|--- |
| 5988 | | H | 6 | -9 | -6 |
| 5989 | | S | | 6 | -6 |
| 5990 | | O | | | 4 |
| 5991 | | Iteration cutoff | 2 |
| 5992 | | |
| 5993 | | Matchmaker pflA 1, chain A (#9.1.1) with |
| 5994 | | fold_pylori_flgy_pfla2_nosig_model_1.cif C, chain C (#5.3), sequence alignment |
| 5995 | | score = 3184.1 |
| 5996 | | RMSD between 177 pruned atom pairs is 0.625 angstroms; (across all 612 pairs: |
| 5997 | | 18.352) |
| 5998 | | |
| 5999 | | |
| 6000 | | > hide #5.1 models |
| 6001 | | |
| 6002 | | > hide #5.2 models |
| 6003 | | |
| 6004 | | > hide #5.4 models |
| 6005 | | |
| 6006 | | > show #!1 models |
| 6007 | | |
| 6008 | | > close #2,8,10#5 |
| 6009 | | |
| 6010 | | > view orient |
| 6011 | | |
| 6012 | | [Repeated 1 time(s)] |
| 6013 | | |
| 6014 | | > show #!6 models |
| 6015 | | |
| 6016 | | > view orient |
| 6017 | | |
| 6018 | | > show #!3 models |
| 6019 | | |
| 6020 | | > show #!3.2 models |
| 6021 | | |
| 6022 | | > rename #3.2 id #4 |
| 6023 | | |
| 6024 | | > close #3 |
| 6025 | | |
| 6026 | | > rename #9 id #2 |
| 6027 | | |
| 6028 | | > rename #7 id #3 |
| 6029 | | |
| 6030 | | > rename #12 id #7 |
| 6031 | | |
| 6032 | | > rename #13 id #8 |
| 6033 | | |
| 6034 | | > rename #15 id #9 |
| 6035 | | |
| 6036 | | > rename #4 "pflB " |
| 6037 | | |
| 6038 | | > show #!7 models |
| 6039 | | |
| 6040 | | > show #!8 models |
| 6041 | | |
| 6042 | | > show #!9 models |
| 6043 | | |
| 6044 | | > show #!3 models |
| 6045 | | |
| 6046 | | > save "C:/Users/Jack Botting/Documents/Chimera/Saved Sessions/pylori flgY |
| 6047 | | > pflA pflB.cxs" |
| 6048 | | |
| 6049 | | ——— End of log from Tue Jun 4 11:39:36 2024 ——— |
| 6050 | | |
| 6051 | | opened ChimeraX session |
| 6052 | | |
| 6053 | | > color #3.*.1 orchid |
| 6054 | | |
| 6055 | | > color #7 yellow |
| 6056 | | |
| 6057 | | > color #8 forest green |
| 6058 | | |
| 6059 | | > color #8 green |
| 6060 | | |
| 6061 | | > color #2 #7b68ee |
| 6062 | | |
| 6063 | | > color #2 mediumslateblue models |
| 6064 | | |
| 6065 | | > color #2 #6152bdff models |
| 6066 | | |
| 6067 | | > color #2 #40377eff models |
| 6068 | | |
| 6069 | | > color #2 #5a4db1ff models |
| 6070 | | |
| 6071 | | > color #2 #5f51baff models |
| 6072 | | |
| 6073 | | > hide #!6 models |
| 6074 | | |
| 6075 | | > hide #!4 models |
| 6076 | | |
| 6077 | | > hide #!3 models |
| 6078 | | |
| 6079 | | > hide #!2 models |
| 6080 | | |
| 6081 | | > hide #!1.2 models |
| 6082 | | |
| 6083 | | > show #!1.2 models |
| 6084 | | |
| 6085 | | > hide #!7 models |
| 6086 | | |
| 6087 | | > hide #!8 models |
| 6088 | | |
| 6089 | | > hide #!9 models |
| 6090 | | |
| 6091 | | Segmenting HP-PflA-PflB-2.1A.mrc, density threshold 0.783137 |
| 6092 | | Showing 283 region surfaces |
| 6093 | | 3344 watershed regions, grouped to 283 regions |
| 6094 | | Showing HP-PflA-PflB-2.1A.seg - 283 regions, 283 surfaces |
| 6095 | | |
| 6096 | | > select add #5 |
| 6097 | | |
| 6098 | | 284 models selected |
| 6099 | | |
| 6100 | | > ui mousemode right "translate selected models" |
| 6101 | | |
| 6102 | | > view matrix models #5,1,0,0,209.3,0,1,0,-34.119,0,0,1,69.594 |
| 6103 | | |
| 6104 | | > view matrix models #5,1,0,0,208.49,0,1,0,-8.9177,0,0,1,64.454 |
| 6105 | | |
| 6106 | | > view matrix models #5,1,0,0,211.45,0,1,0,-9.0965,0,0,1,64.729 |
| 6107 | | |
| 6108 | | > select clear |
| 6109 | | |
| 6110 | | > show #!6 models |
| 6111 | | |
| 6112 | | > select #5.190 |
| 6113 | | |
| 6114 | | 1 model selected |
| 6115 | | |
| 6116 | | > select add #5.104 |
| 6117 | | |
| 6118 | | 2 models selected |
| 6119 | | Ungrouped to 4 regions |
| 6120 | | Ungrouped to 12 regions |
| 6121 | | Ungrouped to 7 regions |
| 6122 | | Ungrouped to 0 regions |
| 6123 | | |
| 6124 | | > select add #5 |
| 6125 | | |
| 6126 | | 299 models selected |
| 6127 | | |
| 6128 | | > view matrix models #5,1,0,0,212.19,0,1,0,-8.3139,0,0,1,65.137 |
| 6129 | | |
| 6130 | | > select clear |
| 6131 | | |
| 6132 | | > show #!2 models |
| 6133 | | |
| 6134 | | > select #5.37 |
| 6135 | | |
| 6136 | | 1 model selected |
| 6137 | | |
| 6138 | | > close #5 |
| 6139 | | |
| 6140 | | > view orient |
| 6141 | | |
| 6142 | | > select clear |
| 6143 | | |
| 6144 | | > hide #!6 models |
| 6145 | | |
| 6146 | | > view orient |
| 6147 | | |
| 6148 | | > save "C:/Users/Jack Botting/Documents/Chimera/Saved Sessions/pylori flgY |
| 6149 | | > pflA pflB.cxs" |
| 6150 | | |
| 6151 | | ——— End of log from Tue Jun 4 16:15:45 2024 ——— |
| 6152 | | |
| 6153 | | opened ChimeraX session |
| 6154 | | Segmenting HP-PflA-PflB-2.1A.mrc, density threshold 0.783137 |
| 6155 | | Showing 283 region surfaces |
| 6156 | | 3344 watershed regions, grouped to 283 regions |
| 6157 | | Showing HP-PflA-PflB-2.1A.seg - 283 regions, 283 surfaces |
| 6158 | | |
| 6159 | | > select add #5 |
| 6160 | | |
| 6161 | | 284 models selected |
| 6162 | | |
| 6163 | | > view matrix models #5,1,0,0,213.13,0,1,0,-12.179,0,0,1,64.138 |
| 6164 | | |
| 6165 | | > view matrix models #5,1,0,0,214.02,0,1,0,-6.5896,0,0,1,64.448 |
| 6166 | | |
| 6167 | | > select clear |
| 6168 | | |
| 6169 | | > ui tool show "Side View" |
| 6170 | | |
| 6171 | | > view orient |
| 6172 | | |
| 6173 | | > hide #!1.2 models |
| 6174 | | |
| 6175 | | > select #5.248 |
| 6176 | | |
| 6177 | | 1 model selected |
| 6178 | | |
| 6179 | | > select add #5.37 |
| 6180 | | |
| 6181 | | 2 models selected |
| 6182 | | |
| 6183 | | > select add #5.31 |
| 6184 | | |
| 6185 | | 3 models selected |
| 6186 | | |
| 6187 | | > show #!4 models |
| 6188 | | |
| 6189 | | > select clear |
| 6190 | | |
| 6191 | | > show #!9 models |
| 6192 | | |
| 6193 | | > select #5.248 |
| 6194 | | |
| 6195 | | 1 model selected |
| 6196 | | |
| 6197 | | > select add #5.37 |
| 6198 | | |
| 6199 | | 2 models selected |
| 6200 | | |
| 6201 | | > select add #5.31 |
| 6202 | | |
| 6203 | | 3 models selected |
| 6204 | | |
| 6205 | | > select add #5.90 |
| 6206 | | |
| 6207 | | 4 models selected |
| 6208 | | |
| 6209 | | > select add #5.141 |
| 6210 | | |
| 6211 | | 5 models selected |
| 6212 | | |
| 6213 | | > select add #5.104 |
| 6214 | | |
| 6215 | | 6 models selected |
| 6216 | | |
| 6217 | | > view orient |
| 6218 | | |
| 6219 | | > sym clear #4 |
| 6220 | | |
| 6221 | | > select add #5.28 |
| 6222 | | |
| 6223 | | 7 models selected |
| 6224 | | |
| 6225 | | > select add #5.12 |
| 6226 | | |
| 6227 | | 8 models selected |
| 6228 | | |
| 6229 | | > select add #5.62 |
| 6230 | | |
| 6231 | | 9 models selected |
| 6232 | | |
| 6233 | | > select add #5.42 |
| 6234 | | |
| 6235 | | 10 models selected |
| 6236 | | |
| 6237 | | > show #!7 models |
| 6238 | | |
| 6239 | | > hide #!7 models |
| 6240 | | |
| 6241 | | Region has 27 adjacent regions |
| 6242 | | [Repeated 1 time(s)] |
| 6243 | | |
| 6244 | | > select add #5.75 |
| 6245 | | |
| 6246 | | 11 models selected |
| 6247 | | |
| 6248 | | > select add #5.228 |
| 6249 | | |
| 6250 | | 12 models selected |
| 6251 | | Region has 27 adjacent regions |
| 6252 | | [Repeated 1 time(s)]Grouped 12 regions |
| 6253 | | |
| 6254 | | > select clear |
| 6255 | | |
| 6256 | | Showing 272 region surfaces |
| 6257 | | |
| 6258 | | > select #5.12 |
| 6259 | | |
| 6260 | | 1 model selected |
| 6261 | | |
| 6262 | | > select add #5.174 |
| 6263 | | |
| 6264 | | 2 models selected |
| 6265 | | |
| 6266 | | > select add #5.169 |
| 6267 | | |
| 6268 | | 3 models selected |
| 6269 | | |
| 6270 | | > select add #5.46 |
| 6271 | | |
| 6272 | | 4 models selected |
| 6273 | | Grouped 4 regions |
| 6274 | | Ungrouped to 4 regions |
| 6275 | | Ungrouped to 19 regions |
| 6276 | | Ungrouped to 50 regions |
| 6277 | | Ungrouped to 58 regions |
| 6278 | | Ungrouped to 25 regions |
| 6279 | | Ungrouped to 2 regions |
| 6280 | | Ungrouped to 0 regions |
| 6281 | | |
| 6282 | | > select #5.320 |
| 6283 | | |
| 6284 | | 1 model selected |
| 6285 | | |
| 6286 | | > select add #5.364 |
| 6287 | | |
| 6288 | | 2 models selected |
| 6289 | | |
| 6290 | | > select add #5.363 |
| 6291 | | |
| 6292 | | 3 models selected |
| 6293 | | |
| 6294 | | > select add #5.291 |
| 6295 | | |
| 6296 | | 4 models selected |
| 6297 | | |
| 6298 | | > select add #5.340 |
| 6299 | | |
| 6300 | | 5 models selected |
| 6301 | | |
| 6302 | | > select add #5.324 |
| 6303 | | |
| 6304 | | 6 models selected |
| 6305 | | |
| 6306 | | > select add #5.326 |
| 6307 | | |
| 6308 | | 7 models selected |
| 6309 | | |
| 6310 | | > select add #5.339 |
| 6311 | | |
| 6312 | | 8 models selected |
| 6313 | | |
| 6314 | | > select add #5.31 |
| 6315 | | |
| 6316 | | 9 models selected |
| 6317 | | |
| 6318 | | > select add #5.28 |
| 6319 | | |
| 6320 | | 10 models selected |
| 6321 | | |
| 6322 | | > select add #5.368 |
| 6323 | | |
| 6324 | | 11 models selected |
| 6325 | | |
| 6326 | | > select add #5.369 |
| 6327 | | |
| 6328 | | 12 models selected |
| 6329 | | |
| 6330 | | > select add #5.322 |
| 6331 | | |
| 6332 | | 13 models selected |
| 6333 | | |
| 6334 | | > select add #5.367 |
| 6335 | | |
| 6336 | | 14 models selected |
| 6337 | | |
| 6338 | | > select add #5.290 |
| 6339 | | |
| 6340 | | 15 models selected |
| 6341 | | |
| 6342 | | > select add #5.321 |
| 6343 | | |
| 6344 | | 16 models selected |
| 6345 | | |
| 6346 | | > select add #5.169 |
| 6347 | | |
| 6348 | | 17 models selected |
| 6349 | | |
| 6350 | | > select add #5.141 |
| 6351 | | |
| 6352 | | 18 models selected |
| 6353 | | |
| 6354 | | > select subtract #5.321 |
| 6355 | | |
| 6356 | | 17 models selected |
| 6357 | | |
| 6358 | | > select subtract #5.169 |
| 6359 | | |
| 6360 | | 16 models selected |
| 6361 | | |
| 6362 | | > select subtract #5.141 |
| 6363 | | |
| 6364 | | 15 models selected |
| 6365 | | Grouped 15 regions |
| 6366 | | |
| 6367 | | > select clear |
| 6368 | | |
| 6369 | | > select add #5.321 |
| 6370 | | |
| 6371 | | 1 model selected |
| 6372 | | |
| 6373 | | > select add #5.169 |
| 6374 | | |
| 6375 | | 2 models selected |
| 6376 | | |
| 6377 | | > select add #5.141 |
| 6378 | | |
| 6379 | | 3 models selected |
| 6380 | | |
| 6381 | | > select add #5.349 |
| 6382 | | |
| 6383 | | 4 models selected |
| 6384 | | |
| 6385 | | > select add #5.348 |
| 6386 | | |
| 6387 | | 5 models selected |
| 6388 | | |
| 6389 | | > select add #5.342 |
| 6390 | | |
| 6391 | | 6 models selected |
| 6392 | | |
| 6393 | | > select add #5.316 |
| 6394 | | |
| 6395 | | 7 models selected |
| 6396 | | |
| 6397 | | > select add #5.344 |
| 6398 | | |
| 6399 | | 8 models selected |
| 6400 | | |
| 6401 | | > select add #5.62 |
| 6402 | | |
| 6403 | | 9 models selected |
| 6404 | | |
| 6405 | | > select add #5.104 |
| 6406 | | |
| 6407 | | 10 models selected |
| 6408 | | |
| 6409 | | > select add #5.305 |
| 6410 | | |
| 6411 | | 11 models selected |
| 6412 | | |
| 6413 | | > select subtract #5.62 |
| 6414 | | |
| 6415 | | 10 models selected |
| 6416 | | |
| 6417 | | > select subtract #5.104 |
| 6418 | | |
| 6419 | | 9 models selected |
| 6420 | | |
| 6421 | | > select add #5.297 |
| 6422 | | |
| 6423 | | 10 models selected |
| 6424 | | |
| 6425 | | > select add #5.62 |
| 6426 | | |
| 6427 | | 11 models selected |
| 6428 | | Region has 38 adjacent regions |
| 6429 | | |
| 6430 | | > select add #5.104 |
| 6431 | | |
| 6432 | | 12 models selected |
| 6433 | | Region has 38 adjacent regions |
| 6434 | | Grouped 12 regions |
| 6435 | | Region has 27 adjacent regions |
| 6436 | | |
| 6437 | | > select add #5.314 |
| 6438 | | |
| 6439 | | 2 models selected |
| 6440 | | Grouped 2 regions |
| 6441 | | |
| 6442 | | > hide #!2 models |
| 6443 | | |
| 6444 | | Region has 26 adjacent regions |
| 6445 | | |
| 6446 | | > select add #5.347 |
| 6447 | | |
| 6448 | | 2 models selected |
| 6449 | | Region has 26 adjacent regions |
| 6450 | | [Repeated 4 time(s)] |
| 6451 | | |
| 6452 | | > select add #5.295 |
| 6453 | | |
| 6454 | | 3 models selected |
| 6455 | | Grouped 3 regions |
| 6456 | | Region has 25 adjacent regions |
| 6457 | | [Repeated 1 time(s)] |
| 6458 | | |
| 6459 | | > select clear |
| 6460 | | |
| 6461 | | > select #5.310 |
| 6462 | | |
| 6463 | | 1 model selected |
| 6464 | | |
| 6465 | | > select add #5.330 |
| 6466 | | |
| 6467 | | 2 models selected |
| 6468 | | |
| 6469 | | > select add #5.350 |
| 6470 | | |
| 6471 | | 3 models selected |
| 6472 | | |
| 6473 | | > select add #5.351 |
| 6474 | | |
| 6475 | | 4 models selected |
| 6476 | | |
| 6477 | | > select add #5.379 |
| 6478 | | |
| 6479 | | 5 models selected |
| 6480 | | Grouped 5 regions |
| 6481 | | Region has 10 adjacent regions |
| 6482 | | |
| 6483 | | > select add #5.293 |
| 6484 | | |
| 6485 | | 2 models selected |
| 6486 | | |
| 6487 | | > select add #5.378 |
| 6488 | | |
| 6489 | | 3 models selected |
| 6490 | | |
| 6491 | | > select add #5.292 |
| 6492 | | |
| 6493 | | 4 models selected |
| 6494 | | |
| 6495 | | > select add #5.380 |
| 6496 | | |
| 6497 | | 5 models selected |
| 6498 | | |
| 6499 | | > select add #5.46 |
| 6500 | | |
| 6501 | | 6 models selected |
| 6502 | | Grouped 6 regions |
| 6503 | | Region has 7 adjacent regions |
| 6504 | | |
| 6505 | | > select add #5.288 |
| 6506 | | |
| 6507 | | 2 models selected |
| 6508 | | |
| 6509 | | > select add #5.309 |
| 6510 | | |
| 6511 | | 3 models selected |
| 6512 | | Grouped 3 regions |
| 6513 | | Region has 13 adjacent regions |
| 6514 | | |
| 6515 | | > select add #5.304 |
| 6516 | | |
| 6517 | | 2 models selected |
| 6518 | | Grouped 2 regions |
| 6519 | | |
| 6520 | | > select add #5.303 |
| 6521 | | |
| 6522 | | 2 models selected |
| 6523 | | |
| 6524 | | > select add #5.302 |
| 6525 | | |
| 6526 | | 3 models selected |
| 6527 | | Grouped 3 regions |
| 6528 | | Region has 12 adjacent regions |
| 6529 | | [Repeated 1 time(s)] |
| 6530 | | |
| 6531 | | > select add #5.31 |
| 6532 | | |
| 6533 | | 2 models selected |
| 6534 | | Region has 29 adjacent regions |
| 6535 | | |
| 6536 | | > select add #5.28 |
| 6537 | | |
| 6538 | | 3 models selected |
| 6539 | | Region has 38 adjacent regions |
| 6540 | | [Repeated 1 time(s)] |
| 6541 | | |
| 6542 | | > select add #5.360 |
| 6543 | | |
| 6544 | | 4 models selected |
| 6545 | | Region has 41 adjacent regions |
| 6546 | | |
| 6547 | | > select #5.28 |
| 6548 | | |
| 6549 | | 1 model selected |
| 6550 | | |
| 6551 | | > select add #5.31 |
| 6552 | | |
| 6553 | | 2 models selected |
| 6554 | | |
| 6555 | | > select add #5.42 |
| 6556 | | |
| 6557 | | 3 models selected |
| 6558 | | |
| 6559 | | > select clear |
| 6560 | | |
| 6561 | | > select #5.31 |
| 6562 | | |
| 6563 | | 1 model selected |
| 6564 | | Ungrouped to 3 regions |
| 6565 | | Ungrouped to 2 regions |
| 6566 | | Ungrouped to 12 regions |
| 6567 | | Ungrouped to 0 regions |
| 6568 | | |
| 6569 | | > select #5.169 |
| 6570 | | |
| 6571 | | 1 model selected |
| 6572 | | |
| 6573 | | > select add #5.291 |
| 6574 | | |
| 6575 | | 2 models selected |
| 6576 | | |
| 6577 | | > select add #5.293 |
| 6578 | | |
| 6579 | | 3 models selected |
| 6580 | | |
| 6581 | | > select add #5.31 |
| 6582 | | |
| 6583 | | 4 models selected |
| 6584 | | |
| 6585 | | > select add #5.287 |
| 6586 | | |
| 6587 | | 5 models selected |
| 6588 | | |
| 6589 | | > select add #5.302 |
| 6590 | | |
| 6591 | | 6 models selected |
| 6592 | | |
| 6593 | | > select add #5.288 |
| 6594 | | |
| 6595 | | 7 models selected |
| 6596 | | |
| 6597 | | > select add #5.104 |
| 6598 | | |
| 6599 | | 8 models selected |
| 6600 | | |
| 6601 | | > select add #5.62 |
| 6602 | | |
| 6603 | | 9 models selected |
| 6604 | | |
| 6605 | | > select add #5.297 |
| 6606 | | |
| 6607 | | 10 models selected |
| 6608 | | |
| 6609 | | > select add #5.303 |
| 6610 | | |
| 6611 | | 11 models selected |
| 6612 | | |
| 6613 | | > select add #5.46 |
| 6614 | | |
| 6615 | | 12 models selected |
| 6616 | | |
| 6617 | | > select add #5.295 |
| 6618 | | |
| 6619 | | 13 models selected |
| 6620 | | |
| 6621 | | > select add #5.290 |
| 6622 | | |
| 6623 | | 14 models selected |
| 6624 | | |
| 6625 | | > select add #5.292 |
| 6626 | | |
| 6627 | | 15 models selected |
| 6628 | | Grouped 15 regions |
| 6629 | | Showing 329 region surfaces |
| 6630 | | |
| 6631 | | > select #5.360 |
| 6632 | | |
| 6633 | | 1 model selected |
| 6634 | | |
| 6635 | | > select add #5.359 |
| 6636 | | |
| 6637 | | 2 models selected |
| 6638 | | |
| 6639 | | > select add #5.306 |
| 6640 | | |
| 6641 | | 3 models selected |
| 6642 | | |
| 6643 | | > select add #5.318 |
| 6644 | | |
| 6645 | | 4 models selected |
| 6646 | | Region has 13 adjacent regions |
| 6647 | | |
| 6648 | | > select add #5.319 |
| 6649 | | |
| 6650 | | 5 models selected |
| 6651 | | |
| 6652 | | > select add #5.371 |
| 6653 | | |
| 6654 | | 6 models selected |
| 6655 | | |
| 6656 | | > select add #5.370 |
| 6657 | | |
| 6658 | | 7 models selected |
| 6659 | | |
| 6660 | | > select add #5.374 |
| 6661 | | |
| 6662 | | 8 models selected |
| 6663 | | |
| 6664 | | > select add #5.365 |
| 6665 | | |
| 6666 | | 9 models selected |
| 6667 | | |
| 6668 | | > select add #5.354 |
| 6669 | | |
| 6670 | | 10 models selected |
| 6671 | | |
| 6672 | | > select add #5.353 |
| 6673 | | |
| 6674 | | 11 models selected |
| 6675 | | Grouped 11 regions |
| 6676 | | Region has 11 adjacent regions |
| 6677 | | |
| 6678 | | > select add #5.329 |
| 6679 | | |
| 6680 | | 2 models selected |
| 6681 | | |
| 6682 | | > select add #5.328 |
| 6683 | | |
| 6684 | | 3 models selected |
| 6685 | | |
| 6686 | | > select add #5.375 |
| 6687 | | |
| 6688 | | 4 models selected |
| 6689 | | |
| 6690 | | > select add #5.327 |
| 6691 | | |
| 6692 | | 5 models selected |
| 6693 | | |
| 6694 | | > select add #5.335 |
| 6695 | | |
| 6696 | | 6 models selected |
| 6697 | | |
| 6698 | | > select add #5.336 |
| 6699 | | |
| 6700 | | 7 models selected |
| 6701 | | |
| 6702 | | > select add #5.337 |
| 6703 | | |
| 6704 | | 8 models selected |
| 6705 | | |
| 6706 | | > select add #5.334 |
| 6707 | | |
| 6708 | | 9 models selected |
| 6709 | | Grouped 9 regions |
| 6710 | | Region has 6 adjacent regions |
| 6711 | | |
| 6712 | | > select add #5.312 |
| 6713 | | |
| 6714 | | 2 models selected |
| 6715 | | |
| 6716 | | > select add #5.313 |
| 6717 | | |
| 6718 | | 3 models selected |
| 6719 | | |
| 6720 | | > select add #5.343 |
| 6721 | | |
| 6722 | | 4 models selected |
| 6723 | | |
| 6724 | | > select subtract #5.343 |
| 6725 | | |
| 6726 | | 3 models selected |
| 6727 | | Grouped 3 regions |
| 6728 | | Region has 4 adjacent regions |
| 6729 | | [Repeated 1 time(s)] |
| 6730 | | |
| 6731 | | > select clear |
| 6732 | | |
| 6733 | | Showing 264 grouped regions |
| 6734 | | |
| 6735 | | > select #5.28 |
| 6736 | | |
| 6737 | | 1 model selected |
| 6738 | | |
| 6739 | | > select add #5.31 |
| 6740 | | |
| 6741 | | 2 models selected |
| 6742 | | |
| 6743 | | > select add #5.46 |
| 6744 | | |
| 6745 | | 3 models selected |
| 6746 | | |
| 6747 | | > select add #5.42 |
| 6748 | | |
| 6749 | | 4 models selected |
| 6750 | | Deleted 305 regions |
| 6751 | | |
| 6752 | | > save "C:/Users/Jack Botting/Documents/Chimera/Saved Sessions/pylori pfla |
| 6753 | | > asymm.seg" models #5 |
| 6754 | | |
| 6755 | | > view orient |
| 6756 | | |
| 6757 | | [Repeated 1 time(s)] |
| 6758 | | |
| 6759 | | > open "C:/Users/Jack Botting/Documents/Chimera/Saved Sessions/pylori pfla |
| 6760 | | > asymm.seg" |
| 6761 | | |
| 6762 | | Summary of feedback from opening C:/Users/Jack Botting/Documents/Chimera/Saved |
| 6763 | | Sessions/pylori pfla asymm.seg |
| 6764 | | --- |
| 6765 | | note | Showing 4 region surfaces |
| 6766 | | |
| 6767 | | Opened pylori pfla asymm.seg |
| 6768 | | |
| 6769 | | > open "C:/Users/Jack Botting/Documents/Chimera/Saved Sessions/pylori pfla |
| 6770 | | > asymm.seg" |
| 6771 | | |
| 6772 | | Summary of feedback from opening C:/Users/Jack Botting/Documents/Chimera/Saved |
| 6773 | | Sessions/pylori pfla asymm.seg |
| 6774 | | --- |
| 6775 | | note | Showing 4 region surfaces |
| 6776 | | |
| 6777 | | Opened pylori pfla asymm.seg |
| 6778 | | |
| 6779 | | > open "C:/Users/Jack Botting/Documents/Chimera/Saved Sessions/pylori pfla |
| 6780 | | > asymm.seg" |
| 6781 | | |
| 6782 | | Summary of feedback from opening C:/Users/Jack Botting/Documents/Chimera/Saved |
| 6783 | | Sessions/pylori pfla asymm.seg |
| 6784 | | --- |
| 6785 | | note | Showing 4 region surfaces |
| 6786 | | |
| 6787 | | Opened pylori pfla asymm.seg |
| 6788 | | |
| 6789 | | > open "C:/Users/Jack Botting/Documents/Chimera/Saved Sessions/pylori pfla |
| 6790 | | > asymm.seg" |
| 6791 | | |
| 6792 | | Summary of feedback from opening C:/Users/Jack Botting/Documents/Chimera/Saved |
| 6793 | | Sessions/pylori pfla asymm.seg |
| 6794 | | --- |
| 6795 | | note | Showing 4 region surfaces |
| 6796 | | |
| 6797 | | Opened pylori pfla asymm.seg |
| 6798 | | |
| 6799 | | > open "C:/Users/Jack Botting/Documents/Chimera/Saved Sessions/pylori pfla |
| 6800 | | > asymm.seg" |
| 6801 | | |
| 6802 | | Summary of feedback from opening C:/Users/Jack Botting/Documents/Chimera/Saved |
| 6803 | | Sessions/pylori pfla asymm.seg |
| 6804 | | --- |
| 6805 | | note | Showing 4 region surfaces |
| 6806 | | |
| 6807 | | Opened pylori pfla asymm.seg |
| 6808 | | |
| 6809 | | > open "C:/Users/Jack Botting/Documents/Chimera/Saved Sessions/pylori pfla |
| 6810 | | > asymm.seg" |
| 6811 | | |
| 6812 | | Summary of feedback from opening C:/Users/Jack Botting/Documents/Chimera/Saved |
| 6813 | | Sessions/pylori pfla asymm.seg |
| 6814 | | --- |
| 6815 | | note | Showing 4 region surfaces |
| 6816 | | |
| 6817 | | Opened pylori pfla asymm.seg |
| 6818 | | |
| 6819 | | > open "C:/Users/Jack Botting/Documents/Chimera/Saved Sessions/pylori pfla |
| 6820 | | > asymm.seg" |
| 6821 | | |
| 6822 | | Summary of feedback from opening C:/Users/Jack Botting/Documents/Chimera/Saved |
| 6823 | | Sessions/pylori pfla asymm.seg |
| 6824 | | --- |
| 6825 | | note | Showing 4 region surfaces |
| 6826 | | |
| 6827 | | Opened pylori pfla asymm.seg |
| 6828 | | |
| 6829 | | > open "C:/Users/Jack Botting/Documents/Chimera/Saved Sessions/pylori pfla |
| 6830 | | > asymm.seg" |
| 6831 | | |
| 6832 | | Summary of feedback from opening C:/Users/Jack Botting/Documents/Chimera/Saved |
| 6833 | | Sessions/pylori pfla asymm.seg |
| 6834 | | --- |
| 6835 | | note | Showing 4 region surfaces |
| 6836 | | |
| 6837 | | Opened pylori pfla asymm.seg |
| 6838 | | |
| 6839 | | > open "C:/Users/Jack Botting/Documents/Chimera/Saved Sessions/pylori pfla |
| 6840 | | > asymm.seg" |
| 6841 | | |
| 6842 | | Summary of feedback from opening C:/Users/Jack Botting/Documents/Chimera/Saved |
| 6843 | | Sessions/pylori pfla asymm.seg |
| 6844 | | --- |
| 6845 | | note | Showing 4 region surfaces |
| 6846 | | |
| 6847 | | Opened pylori pfla asymm.seg |
| 6848 | | |
| 6849 | | > open "C:/Users/Jack Botting/Documents/Chimera/Saved Sessions/pylori pfla |
| 6850 | | > asymm.seg" |
| 6851 | | |
| 6852 | | Summary of feedback from opening C:/Users/Jack Botting/Documents/Chimera/Saved |
| 6853 | | Sessions/pylori pfla asymm.seg |
| 6854 | | --- |
| 6855 | | note | Showing 4 region surfaces |
| 6856 | | |
| 6857 | | Opened pylori pfla asymm.seg |
| 6858 | | |
| 6859 | | > open "C:/Users/Jack Botting/Documents/Chimera/Saved Sessions/pylori pfla |
| 6860 | | > asymm.seg" |
| 6861 | | |
| 6862 | | Summary of feedback from opening C:/Users/Jack Botting/Documents/Chimera/Saved |
| 6863 | | Sessions/pylori pfla asymm.seg |
| 6864 | | --- |
| 6865 | | note | Showing 4 region surfaces |
| 6866 | | |
| 6867 | | Opened pylori pfla asymm.seg |
| 6868 | | |
| 6869 | | > open "C:/Users/Jack Botting/Documents/Chimera/Saved Sessions/pylori pfla |
| 6870 | | > asymm.seg" |
| 6871 | | |
| 6872 | | Summary of feedback from opening C:/Users/Jack Botting/Documents/Chimera/Saved |
| 6873 | | Sessions/pylori pfla asymm.seg |
| 6874 | | --- |
| 6875 | | note | Showing 4 region surfaces |
| 6876 | | |
| 6877 | | Opened pylori pfla asymm.seg |
| 6878 | | |
| 6879 | | > open "C:/Users/Jack Botting/Documents/Chimera/Saved Sessions/pylori pfla |
| 6880 | | > asymm.seg" |
| 6881 | | |
| 6882 | | Summary of feedback from opening C:/Users/Jack Botting/Documents/Chimera/Saved |
| 6883 | | Sessions/pylori pfla asymm.seg |
| 6884 | | --- |
| 6885 | | note | Showing 4 region surfaces |
| 6886 | | |
| 6887 | | Opened pylori pfla asymm.seg |
| 6888 | | |
| 6889 | | > open "C:/Users/Jack Botting/Documents/Chimera/Saved Sessions/pylori pfla |
| 6890 | | > asymm.seg" |
| 6891 | | |
| 6892 | | Summary of feedback from opening C:/Users/Jack Botting/Documents/Chimera/Saved |
| 6893 | | Sessions/pylori pfla asymm.seg |
| 6894 | | --- |
| 6895 | | note | Showing 4 region surfaces |
| 6896 | | |
| 6897 | | Opened pylori pfla asymm.seg |
| 6898 | | |
| 6899 | | > open "C:/Users/Jack Botting/Documents/Chimera/Saved Sessions/pylori pfla |
| 6900 | | > asymm.seg" |
| 6901 | | |
| 6902 | | Summary of feedback from opening C:/Users/Jack Botting/Documents/Chimera/Saved |
| 6903 | | Sessions/pylori pfla asymm.seg |
| 6904 | | --- |
| 6905 | | note | Showing 4 region surfaces |
| 6906 | | |
| 6907 | | Opened pylori pfla asymm.seg |
| 6908 | | |
| 6909 | | > open "C:/Users/Jack Botting/Documents/Chimera/Saved Sessions/pylori pfla |
| 6910 | | > asymm.seg" |
| 6911 | | |
| 6912 | | Summary of feedback from opening C:/Users/Jack Botting/Documents/Chimera/Saved |
| 6913 | | Sessions/pylori pfla asymm.seg |
| 6914 | | --- |
| 6915 | | note | Showing 4 region surfaces |
| 6916 | | |
| 6917 | | Opened pylori pfla asymm.seg |
| 6918 | | |
| 6919 | | > open "C:/Users/Jack Botting/Documents/Chimera/Saved Sessions/pylori pfla |
| 6920 | | > asymm.seg" |
| 6921 | | |
| 6922 | | Summary of feedback from opening C:/Users/Jack Botting/Documents/Chimera/Saved |
| 6923 | | Sessions/pylori pfla asymm.seg |
| 6924 | | --- |
| 6925 | | note | Showing 4 region surfaces |
| 6926 | | |
| 6927 | | Opened pylori pfla asymm.seg |
| 6928 | | |
| 6929 | | > rename #10 id #30 |
| 6930 | | |
| 6931 | | > rename #11 id #31 |
| 6932 | | |
| 6933 | | > rename #12 id #32 |
| 6934 | | |
| 6935 | | > rename #13 id #33 |
| 6936 | | |
| 6937 | | > rename #14 id #34 |
| 6938 | | |
| 6939 | | > rename #15 id #35 |
| 6940 | | |
| 6941 | | > rename #16 id #10 |
| 6942 | | |
| 6943 | | > rename #17 id #11 |
| 6944 | | |
| 6945 | | > rename #18 id #12 |
| 6946 | | |
| 6947 | | > rename #5 id #36 |
| 6948 | | |
| 6949 | | > select #19-35 |
| 6950 | | |
| 6951 | | 85 models selected |
| 6952 | | |
| 6953 | | > view matrix models |
| 6954 | | > #19,1,0,0,216.49,0,1,0,-5.851,0,0,1,0,#20,1,0,0,216.49,0,1,0,-5.851,0,0,1,0,#21,1,0,0,216.49,0,1,0,-5.851,0,0,1,0,#22,1,0,0,216.49,0,1,0,-5.851,0,0,1,0,#23,1,0,0,216.49,0,1,0,-5.851,0,0,1,0,#24,1,0,0,216.49,0,1,0,-5.851,0,0,1,0,#25,1,0,0,216.49,0,1,0,-5.851,0,0,1,0,#26,1,0,0,216.49,0,1,0,-5.851,0,0,1,0,#27,1,0,0,216.49,0,1,0,-5.851,0,0,1,0,#28,1,0,0,216.49,0,1,0,-5.851,0,0,1,0,#29,1,0,0,216.49,0,1,0,-5.851,0,0,1,0,#30,1,0,0,216.49,0,1,0,-5.851,0,0,1,0,#31,1,0,0,216.49,0,1,0,-5.851,0,0,1,0,#32,1,0,0,216.49,0,1,0,-5.851,0,0,1,0,#33,1,0,0,216.49,0,1,0,-5.851,0,0,1,0,#34,1,0,0,216.49,0,1,0,-5.851,0,0,1,0,#35,1,0,0,216.49,0,1,0,-5.851,0,0,1,0 |
| 6955 | | |
| 6956 | | > view matrix models |
| 6957 | | > #19,1,0,0,216.19,0,1,0,-0.24819,0,0,1,64.137,#20,1,0,0,216.19,0,1,0,-0.24819,0,0,1,64.137,#21,1,0,0,216.19,0,1,0,-0.24819,0,0,1,64.137,#22,1,0,0,216.19,0,1,0,-0.24819,0,0,1,64.137,#23,1,0,0,216.19,0,1,0,-0.24819,0,0,1,64.137,#24,1,0,0,216.19,0,1,0,-0.24819,0,0,1,64.137,#25,1,0,0,216.19,0,1,0,-0.24819,0,0,1,64.137,#26,1,0,0,216.19,0,1,0,-0.24819,0,0,1,64.137,#27,1,0,0,216.19,0,1,0,-0.24819,0,0,1,64.137,#28,1,0,0,216.19,0,1,0,-0.24819,0,0,1,64.137,#29,1,0,0,216.19,0,1,0,-0.24819,0,0,1,64.137,#30,1,0,0,216.19,0,1,0,-0.24819,0,0,1,64.137,#31,1,0,0,216.19,0,1,0,-0.24819,0,0,1,64.137,#32,1,0,0,216.19,0,1,0,-0.24819,0,0,1,64.137,#33,1,0,0,216.19,0,1,0,-0.24819,0,0,1,64.137,#34,1,0,0,216.19,0,1,0,-0.24819,0,0,1,64.137,#35,1,0,0,216.19,0,1,0,-0.24819,0,0,1,64.137 |
| 6958 | | |
| 6959 | | > hide #!9 models |
| 6960 | | |
| 6961 | | > view matrix models |
| 6962 | | > #19,1,0,0,213.49,0,1,0,-0.28232,0,0,1,63.952,#20,1,0,0,213.49,0,1,0,-0.28232,0,0,1,63.952,#21,1,0,0,213.49,0,1,0,-0.28232,0,0,1,63.952,#22,1,0,0,213.49,0,1,0,-0.28232,0,0,1,63.952,#23,1,0,0,213.49,0,1,0,-0.28232,0,0,1,63.952,#24,1,0,0,213.49,0,1,0,-0.28232,0,0,1,63.952,#25,1,0,0,213.49,0,1,0,-0.28232,0,0,1,63.952,#26,1,0,0,213.49,0,1,0,-0.28232,0,0,1,63.952,#27,1,0,0,213.49,0,1,0,-0.28232,0,0,1,63.952,#28,1,0,0,213.49,0,1,0,-0.28232,0,0,1,63.952,#29,1,0,0,213.49,0,1,0,-0.28232,0,0,1,63.952,#30,1,0,0,213.49,0,1,0,-0.28232,0,0,1,63.952,#31,1,0,0,213.49,0,1,0,-0.28232,0,0,1,63.952,#32,1,0,0,213.49,0,1,0,-0.28232,0,0,1,63.952,#33,1,0,0,213.49,0,1,0,-0.28232,0,0,1,63.952,#34,1,0,0,213.49,0,1,0,-0.28232,0,0,1,63.952,#35,1,0,0,213.49,0,1,0,-0.28232,0,0,1,63.952 |
| 6963 | | |
| 6964 | | > view matrix models |
| 6965 | | > #19,1,0,0,213.59,0,1,0,-6.7631,0,0,1,64.403,#20,1,0,0,213.59,0,1,0,-6.7631,0,0,1,64.403,#21,1,0,0,213.59,0,1,0,-6.7631,0,0,1,64.403,#22,1,0,0,213.59,0,1,0,-6.7631,0,0,1,64.403,#23,1,0,0,213.59,0,1,0,-6.7631,0,0,1,64.403,#24,1,0,0,213.59,0,1,0,-6.7631,0,0,1,64.403,#25,1,0,0,213.59,0,1,0,-6.7631,0,0,1,64.403,#26,1,0,0,213.59,0,1,0,-6.7631,0,0,1,64.403,#27,1,0,0,213.59,0,1,0,-6.7631,0,0,1,64.403,#28,1,0,0,213.59,0,1,0,-6.7631,0,0,1,64.403,#29,1,0,0,213.59,0,1,0,-6.7631,0,0,1,64.403,#30,1,0,0,213.59,0,1,0,-6.7631,0,0,1,64.403,#31,1,0,0,213.59,0,1,0,-6.7631,0,0,1,64.403,#32,1,0,0,213.59,0,1,0,-6.7631,0,0,1,64.403,#33,1,0,0,213.59,0,1,0,-6.7631,0,0,1,64.403,#34,1,0,0,213.59,0,1,0,-6.7631,0,0,1,64.403,#35,1,0,0,213.59,0,1,0,-6.7631,0,0,1,64.403 |
| 6966 | | |
| 6967 | | > view orient |
| 6968 | | |
| 6969 | | > show #!1.1 models |
| 6970 | | |
| 6971 | | > view orient |
| 6972 | | |
| 6973 | | > view matrix models |
| 6974 | | > #19,1,0,0,221.19,0,1,0,-6.2876,0,0,1,64.403,#20,1,0,0,221.19,0,1,0,-6.2876,0,0,1,64.403,#21,1,0,0,221.19,0,1,0,-6.2876,0,0,1,64.403,#22,1,0,0,221.19,0,1,0,-6.2876,0,0,1,64.403,#23,1,0,0,221.19,0,1,0,-6.2876,0,0,1,64.403,#24,1,0,0,221.19,0,1,0,-6.2876,0,0,1,64.403,#25,1,0,0,221.19,0,1,0,-6.2876,0,0,1,64.403,#26,1,0,0,221.19,0,1,0,-6.2876,0,0,1,64.403,#27,1,0,0,221.19,0,1,0,-6.2876,0,0,1,64.403,#28,1,0,0,221.19,0,1,0,-6.2876,0,0,1,64.403,#29,1,0,0,221.19,0,1,0,-6.2876,0,0,1,64.403,#30,1,0,0,221.19,0,1,0,-6.2876,0,0,1,64.403,#31,1,0,0,221.19,0,1,0,-6.2876,0,0,1,64.403,#32,1,0,0,221.19,0,1,0,-6.2876,0,0,1,64.403,#33,1,0,0,221.19,0,1,0,-6.2876,0,0,1,64.403,#34,1,0,0,221.19,0,1,0,-6.2876,0,0,1,64.403,#35,1,0,0,221.19,0,1,0,-6.2876,0,0,1,64.403 |
| 6975 | | |
| 6976 | | > undo |
| 6977 | | |
| 6978 | | > select clear |
| 6979 | | |
| 6980 | | > turn z 20 1 models #19 center #1.1 |
| 6981 | | |
| 6982 | | > turn z 20 2 models #20 center #1.1 |
| 6983 | | |
| 6984 | | > turn z 20 3 models #21 center #1.1 |
| 6985 | | |
| 6986 | | > turn z 20 4 models #22 center #1.1 |
| 6987 | | |
| 6988 | | > turn z 20 5 models #23 center #1.1 |
| 6989 | | |
| 6990 | | > turn z 20 6 models #24 center #1.1 |
| 6991 | | |
| 6992 | | > turn z 20 7 models #25 center #1.1 |
| 6993 | | |
| 6994 | | > turn z 20 8 models #26 center #1.1 |
| 6995 | | |
| 6996 | | > turn z 20 9 models #27 center #1.1 |
| 6997 | | |
| 6998 | | > turn z 20 10 models #28 center #1.1 |
| 6999 | | |
| 7000 | | > turn z 20 11 models #29 center #1.1 |
| 7001 | | |
| 7002 | | > turn z 20 12 models #30 center #1.1 |
| 7003 | | |
| 7004 | | > turn z 20 13 models #31 center #1.1 |
| 7005 | | |
| 7006 | | > turn z 20 14 models #32 center #1.1 |
| 7007 | | |
| 7008 | | > turn z 20 15 models #33 center #1.1 |
| 7009 | | |
| 7010 | | > turn z 20 16 models #34 center #1.1 |
| 7011 | | |
| 7012 | | > turn z 20 17 models #35 center #1.1 |
| 7013 | | |
| 7014 | | > view orient |
| 7015 | | |
| 7016 | | > hide #!1.1 models |
| 7017 | | |
| 7018 | | > show #!1.2 models |
| 7019 | | |
| 7020 | | > hide #!1.2 models |
| 7021 | | |
| 7022 | | > view orient |
| 7023 | | |
| 7024 | | > color #19-35.4 #5f51ba |
| 7025 | | |
| 7026 | | > color #19-35.1 #7b68ee |
| 7027 | | |
| 7028 | | > color #19-35.2 yellow |
| 7029 | | |
| 7030 | | > color #19-35.3 #003600 |
| 7031 | | |
| 7032 | | > color #36.42 #003600 |
| 7033 | | |
| 7034 | | > color #36.31 #7b68ee |
| 7035 | | |
| 7036 | | > color #36.28 #5f51ba |
| 7037 | | |
| 7038 | | > color #36.46 yellow |
| 7039 | | |
| 7040 | | Segmenting FlgY-sym13-2.1A.mrc, density threshold 0.997772 |
| 7041 | | Showing 229 region surfaces |
| 7042 | | 2534 watershed regions, grouped to 229 regions |
| 7043 | | |
| 7044 | | > show #!19-28,30-36 target m |
| 7045 | | |
| 7046 | | > hide #!36 models |
| 7047 | | |
| 7048 | | > show #!36 models |
| 7049 | | |
| 7050 | | > hide #!5 models |
| 7051 | | |
| 7052 | | > show #!1.1 models |
| 7053 | | |
| 7054 | | > show #!5 models |
| 7055 | | |
| 7056 | | > select add #5 |
| 7057 | | |
| 7058 | | 230 models selected |
| 7059 | | |
| 7060 | | > view orient |
| 7061 | | |
| 7062 | | > view matrix models #5,1,0,0,-41.306,0,1,0,-6.6385,0,0,1,0 |
| 7063 | | |
| 7064 | | > view matrix models #5,1,0,0,-40.707,0,1,0,-6.0357,0,0,1,-14.746 |
| 7065 | | |
| 7066 | | > hide #!19-28,30-36 target m |
| 7067 | | |
| 7068 | | > select clear |
| 7069 | | |
| 7070 | | > select #5.22 |
| 7071 | | |
| 7072 | | 1 model selected |
| 7073 | | |
| 7074 | | > select add #5.20 |
| 7075 | | |
| 7076 | | 2 models selected |
| 7077 | | |
| 7078 | | > select add #5.19 |
| 7079 | | |
| 7080 | | 3 models selected |
| 7081 | | |
| 7082 | | > select add #5.23 |
| 7083 | | |
| 7084 | | 4 models selected |
| 7085 | | |
| 7086 | | > select add #5.40 |
| 7087 | | |
| 7088 | | 5 models selected |
| 7089 | | |
| 7090 | | > select add #5.1 |
| 7091 | | |
| 7092 | | 6 models selected |
| 7093 | | |
| 7094 | | > select add #5.42 |
| 7095 | | |
| 7096 | | 7 models selected |
| 7097 | | |
| 7098 | | > select add #5.2 |
| 7099 | | |
| 7100 | | 8 models selected |
| 7101 | | |
| 7102 | | > select add #5.37 |
| 7103 | | |
| 7104 | | 9 models selected |
| 7105 | | |
| 7106 | | > select add #5.3 |
| 7107 | | |
| 7108 | | 10 models selected |
| 7109 | | |
| 7110 | | > select add #5.17 |
| 7111 | | |
| 7112 | | 11 models selected |
| 7113 | | |
| 7114 | | > select add #5.18 |
| 7115 | | |
| 7116 | | 12 models selected |
| 7117 | | |
| 7118 | | > select add #5.21 |
| 7119 | | |
| 7120 | | 13 models selected |
| 7121 | | Ungrouped to 39 regions |
| 7122 | | |
| 7123 | | > select #5.266 |
| 7124 | | |
| 7125 | | 1 model selected |
| 7126 | | Ungrouped to 3 regions |
| 7127 | | |
| 7128 | | > select #5.245 |
| 7129 | | |
| 7130 | | 1 model selected |
| 7131 | | |
| 7132 | | > select #5.259 |
| 7133 | | |
| 7134 | | 1 model selected |
| 7135 | | Ungrouped to 3 regions |
| 7136 | | |
| 7137 | | > select #5.249 |
| 7138 | | |
| 7139 | | 1 model selected |
| 7140 | | Ungrouped to 3 regions |
| 7141 | | |
| 7142 | | > select #5.240 |
| 7143 | | |
| 7144 | | 1 model selected |
| 7145 | | |
| 7146 | | > select #5.21 |
| 7147 | | |
| 7148 | | 1 model selected |
| 7149 | | |
| 7150 | | > select #5.240 |
| 7151 | | |
| 7152 | | 1 model selected |
| 7153 | | Ungrouped to 3 regions |
| 7154 | | |
| 7155 | | > select #5.251 |
| 7156 | | |
| 7157 | | 1 model selected |
| 7158 | | |
| 7159 | | > select add #5.242 |
| 7160 | | |
| 7161 | | 2 models selected |
| 7162 | | |
| 7163 | | > select add #5.254 |
| 7164 | | |
| 7165 | | 3 models selected |
| 7166 | | |
| 7167 | | > select add #5.234 |
| 7168 | | |
| 7169 | | 4 models selected |
| 7170 | | |
| 7171 | | > select add #5.2 |
| 7172 | | |
| 7173 | | 5 models selected |
| 7174 | | |
| 7175 | | > select add #5.3 |
| 7176 | | |
| 7177 | | 6 models selected |
| 7178 | | |
| 7179 | | > select add #5.245 |
| 7180 | | |
| 7181 | | 7 models selected |
| 7182 | | |
| 7183 | | > select add #5.263 |
| 7184 | | |
| 7185 | | 8 models selected |
| 7186 | | |
| 7187 | | > select add #5.231 |
| 7188 | | |
| 7189 | | 9 models selected |
| 7190 | | |
| 7191 | | > select add #5.18 |
| 7192 | | |
| 7193 | | 10 models selected |
| 7194 | | |
| 7195 | | > select add #5.19 |
| 7196 | | |
| 7197 | | 11 models selected |
| 7198 | | |
| 7199 | | > select add #5.261 |
| 7200 | | |
| 7201 | | 12 models selected |
| 7202 | | |
| 7203 | | > select add #5.22 |
| 7204 | | |
| 7205 | | 13 models selected |
| 7206 | | |
| 7207 | | > select add #5.236 |
| 7208 | | |
| 7209 | | 14 models selected |
| 7210 | | |
| 7211 | | > select add #5.37 |
| 7212 | | |
| 7213 | | 15 models selected |
| 7214 | | |
| 7215 | | > select add #5.40 |
| 7216 | | |
| 7217 | | 16 models selected |
| 7218 | | Grouped 16 regions |
| 7219 | | |
| 7220 | | > select add #5.241 |
| 7221 | | |
| 7222 | | 2 models selected |
| 7223 | | |
| 7224 | | > select add #5.253 |
| 7225 | | |
| 7226 | | 3 models selected |
| 7227 | | |
| 7228 | | > select add #5.244 |
| 7229 | | |
| 7230 | | 4 models selected |
| 7231 | | |
| 7232 | | > select add #5.256 |
| 7233 | | |
| 7234 | | 5 models selected |
| 7235 | | |
| 7236 | | > select add #5.235 |
| 7237 | | |
| 7238 | | 6 models selected |
| 7239 | | |
| 7240 | | > select add #5.268 |
| 7241 | | |
| 7242 | | 7 models selected |
| 7243 | | |
| 7244 | | > select add #5.246 |
| 7245 | | |
| 7246 | | 8 models selected |
| 7247 | | |
| 7248 | | > select add #5.265 |
| 7249 | | |
| 7250 | | 9 models selected |
| 7251 | | |
| 7252 | | > select add #5.232 |
| 7253 | | |
| 7254 | | 10 models selected |
| 7255 | | |
| 7256 | | > select add #5.258 |
| 7257 | | |
| 7258 | | 11 models selected |
| 7259 | | |
| 7260 | | > select add #5.262 |
| 7261 | | |
| 7262 | | 12 models selected |
| 7263 | | |
| 7264 | | > select add #5.250 |
| 7265 | | |
| 7266 | | 13 models selected |
| 7267 | | |
| 7268 | | > select add #5.238 |
| 7269 | | |
| 7270 | | 14 models selected |
| 7271 | | |
| 7272 | | > select subtract #5.241 |
| 7273 | | |
| 7274 | | 13 models selected |
| 7275 | | Grouped 13 regions |
| 7276 | | |
| 7277 | | > show #!19-28,30-36 target m |
| 7278 | | |
| 7279 | | Region has 32 adjacent regions |
| 7280 | | |
| 7281 | | > select add #5.241 |
| 7282 | | |
| 7283 | | 2 models selected |
| 7284 | | Grouped 2 regions |
| 7285 | | |
| 7286 | | > hide #!1.1 models |
| 7287 | | |
| 7288 | | > select clear |
| 7289 | | |
| 7290 | | > open "C:/Users/Jack Botting/Documents/Chimera/Saved Sessions/pylori pfla |
| 7291 | | > asymm.seg" |
| 7292 | | |
| 7293 | | Summary of feedback from opening C:/Users/Jack Botting/Documents/Chimera/Saved |
| 7294 | | Sessions/pylori pfla asymm.seg |
| 7295 | | --- |
| 7296 | | note | Showing 4 region surfaces |
| 7297 | | |
| 7298 | | Opened pylori pfla asymm.seg |
| 7299 | | |
| 7300 | | > hide #!13 models |
| 7301 | | |
| 7302 | | > show #!13 models |
| 7303 | | |
| 7304 | | > select add #13 |
| 7305 | | |
| 7306 | | 5 models selected |
| 7307 | | |
| 7308 | | > view orient |
| 7309 | | |
| 7310 | | > view matrix models #13,1,0,0,202.16,0,1,0,50.908,0,0,1,0 |
| 7311 | | |
| 7312 | | > view matrix models #13,1,0,0,191.22,0,1,0,45.673,0,0,1,70.544 |
| 7313 | | |
| 7314 | | > view matrix models #13,1,0,0,213.1,0,1,0,-5.5216,0,0,1,69.695 |
| 7315 | | |
| 7316 | | > hide #!19-28,30-35 target m |
| 7317 | | |
| 7318 | | > view matrix models #13,1,0,0,214.22,0,1,0,-5.9712,0,0,1,64.639 |
| 7319 | | |
| 7320 | | > view matrix models #13,1,0,0,214.33,0,1,0,-6.6974,0,0,1,64.637 |
| 7321 | | |
| 7322 | | > show #!19-28,30-35 target m |
| 7323 | | |
| 7324 | | > view orient |
| 7325 | | |
| 7326 | | > turn z 11 20 models #13 |
| 7327 | | |
| 7328 | | > select clear |
| 7329 | | |
| 7330 | | > rename #13 id #29 |
| 7331 | | |
| 7332 | | > color #29.4 #5f51ba |
| 7333 | | |
| 7334 | | > color #29.1 #7b68ee |
| 7335 | | |
| 7336 | | > color #29.3 #003600 |
| 7337 | | |
| 7338 | | > color #29.2 yellow |
| 7339 | | |
| 7340 | | > view orient |
| 7341 | | |
| 7342 | | > show #!9 models |
| 7343 | | |
| 7344 | | > show #!8 models |
| 7345 | | |
| 7346 | | > show #!7 models |
| 7347 | | |
| 7348 | | > show #!6 models |
| 7349 | | |
| 7350 | | > hide #!6 models |
| 7351 | | |
| 7352 | | > show #!3 models |
| 7353 | | |
| 7354 | | > show #!2 models |
| 7355 | | |
| 7356 | | > transparency #19-36 50 |
| 7357 | | |
| 7358 | | > transparency #5 50 |
| 7359 | | |
| 7360 | | > color #5 magenta |
| 7361 | | |
| 7362 | | > save "C:/Users/Jack Botting/Documents/Chimera/Saved Sessions/pylori flgY |
| 7363 | | > pflA pflB.cxs" |
| 7364 | | |
| 7365 | | ——— End of log from Wed Jun 5 14:36:12 2024 ——— |
| 7366 | | |
| 7367 | | opened ChimeraX session |
| 7368 | | |
| 7369 | | > hide #!5 models |
| 7370 | | |
| 7371 | | > show #!5 models |
| 7372 | | |
| 7373 | | > hide #5.1-234 target m |
| 7374 | | |
| 7375 | | > close #5.1-234 |
| 7376 | | |
| 7377 | | > view orient |
| 7378 | | |
| 7379 | | [Repeated 1 time(s)] |
| 7380 | | |
| 7381 | | > sym #4 C18 center #1.1 |
| 7382 | | |
| 7383 | | Invalid "center" argument: Center argument has no object bounds |
| 7384 | | |
| 7385 | | > show #!1.1 models |
| 7386 | | |
| 7387 | | > sym #4 C18 center #1.1 |
| 7388 | | |
| 7389 | | Made 18 graphical clones for pflB symmetry C18 |
| 7390 | | |
| 7391 | | > hide #!1.1 models |
| 7392 | | |
| 7393 | | > view orient |
| 7394 | | |
| 7395 | | > save "C:/Users/Jack Botting/Documents/Chimera/Saved Sessions/pylori flgY |
| 7396 | | > pflA pflB.cxs" |
| 7397 | | |
| 7398 | | ——— End of log from Thu Jun 6 10:26:44 2024 ——— |
| 7399 | | |
| 7400 | | opened ChimeraX session |
| 7401 | | |
| 7402 | | > open "C:/Users/Jack Botting/Documents/B burgdorferi/borrelia maps/IM_1.mrc" |
| 7403 | | |
| 7404 | | Opened IM_1.mrc as #13, grid size 121,121,39, pixel 4.2,4.2,4.2, shown at |
| 7405 | | level 0.0419, step 1, values float32 |
| 7406 | | |
| 7407 | | > open "C:/Users/Jack Botting/Documents/B burgdorferi/borrelia maps/IM_2.mrc" |
| 7408 | | |
| 7409 | | Opened IM_2.mrc as #14, grid size 207,207,129, pixel 5,5,0.6, shown at level |
| 7410 | | 0.0708, step 1, values float32 |
| 7411 | | |
| 7412 | | > select add #13 |
| 7413 | | |
| 7414 | | 2 models selected |
| 7415 | | |
| 7416 | | > select add #14 |
| 7417 | | |
| 7418 | | 4 models selected |
| 7419 | | |
| 7420 | | > ui mousemode right "translate selected models" |
| 7421 | | |
| 7422 | | > view matrix models |
| 7423 | | > #13,1,0,0,-533.4,0,1,0,-492.94,0,0,1,8.0147,#14,1,0,0,-533.4,0,1,0,-492.94,0,0,1,8.0147 |
| 7424 | | |
| 7425 | | > volume #13 level 0.001013 |
| 7426 | | |
| 7427 | | > volume #14 level 0.002112 |
| 7428 | | |
| 7429 | | > color #13,14 dark gray |
| 7430 | | |
| 7431 | | > view matrix models |
| 7432 | | > #13,1,0,0,-546.92,0,1,0,-487.29,0,0,1,-68.732,#14,1,0,0,-546.92,0,1,0,-487.29,0,0,1,-68.732 |
| 7433 | | |
| 7434 | | > select subtract #13 |
| 7435 | | |
| 7436 | | 2 models selected |
| 7437 | | |
| 7438 | | > select add #13 |
| 7439 | | |
| 7440 | | 4 models selected |
| 7441 | | |
| 7442 | | > select subtract #14 |
| 7443 | | |
| 7444 | | 2 models selected |
| 7445 | | |
| 7446 | | > view matrix models #13,1,0,0,-518.11,0,1,0,-451.13,0,0,1,-533.27 |
| 7447 | | |
| 7448 | | > view matrix models #13,1,0,0,-499.41,0,1,0,-444.88,0,0,1,-531.97 |
| 7449 | | |
| 7450 | | > view orient |
| 7451 | | |
| 7452 | | > select add #14 |
| 7453 | | |
| 7454 | | 4 models selected |
| 7455 | | |
| 7456 | | > view matrix models |
| 7457 | | > #13,1,0,0,-509.51,0,1,0,-465.08,0,0,1,-531.97,#14,1,0,0,-557.01,0,1,0,-507.49,0,0,1,-68.732 |
| 7458 | | |
| 7459 | | > select clear |
| 7460 | | |
| 7461 | | > view orient |
| 7462 | | |
| 7463 | | > select add #13 |
| 7464 | | |
| 7465 | | 2 models selected |
| 7466 | | |
| 7467 | | > select add #14 |
| 7468 | | |
| 7469 | | 4 models selected |
| 7470 | | |
| 7471 | | > view matrix models |
| 7472 | | > #13,1,0,0,-505.87,0,1,0,-468.72,0,0,1,-531.97,#14,1,0,0,-553.37,0,1,0,-511.13,0,0,1,-68.732 |
| 7473 | | |
| 7474 | | > select clear |
| 7475 | | |
| 7476 | | > show #!1.2 models |
| 7477 | | |
| 7478 | | > ui tool show "Side View" |
| 7479 | | |
| 7480 | | > hide #!14 models |
| 7481 | | |
| 7482 | | > show #!14 models |
| 7483 | | |
| 7484 | | > hide #!14 models |
| 7485 | | |
| 7486 | | > show #!14 models |
| 7487 | | |
| 7488 | | > hide #!14 models |
| 7489 | | |
| 7490 | | > show #!14 models |
| 7491 | | |
| 7492 | | > view orient |
| 7493 | | |
| 7494 | | > turn x -90 |
| 7495 | | |
| 7496 | | > select add #13 |
| 7497 | | |
| 7498 | | 2 models selected |
| 7499 | | |
| 7500 | | > select add #14 |
| 7501 | | |
| 7502 | | 4 models selected |
| 7503 | | |
| 7504 | | > view matrix models |
| 7505 | | > #13,1,0,0,-505.29,0,1,0,-468.72,0,0,1,-530.21,#14,1,0,0,-552.79,0,1,0,-511.13,0,0,1,-66.974 |
| 7506 | | |
| 7507 | | > select clear |
| 7508 | | |
| 7509 | | > view orient |
| 7510 | | |
| 7511 | | > hide #!1.2 models |
| 7512 | | |
| 7513 | | > save "C:/Users/Jack Botting/Documents/Chimera/Saved Sessions/pylori flgY |
| 7514 | | > pflA pflB.cxs" |
| 7515 | | |
| 7516 | | ——— End of log from Fri Jun 7 16:12:49 2024 ——— |
| 7517 | | |
| 7518 | | opened ChimeraX session |
| 7519 | | |
| 7520 | | > hide #!2-3,5,7-9 target m |
| 7521 | | |
| 7522 | | > hide #19-36.1 |
| 7523 | | |
| 7524 | | > hide #19-36.2 |
| 7525 | | |
| 7526 | | > hide #19-36.4 |
| 7527 | | |
| 7528 | | > sym clear #4 |
| 7529 | | |
| 7530 | | > show #4 cartoons |
| 7531 | | |
| 7532 | | > show #!7 models |
| 7533 | | |
| 7534 | | > hide #!7 models |
| 7535 | | |
| 7536 | | > select #4/B:325 |
| 7537 | | |
| 7538 | | 9 atoms, 8 bonds, 1 residue, 1 model selected |
| 7539 | | |
| 7540 | | > select up |
| 7541 | | |
| 7542 | | 127 atoms, 131 bonds, 14 residues, 2 models selected |
| 7543 | | |
| 7544 | | > select up |
| 7545 | | |
| 7546 | | 5767 atoms, 5902 bonds, 707 residues, 2 models selected |
| 7547 | | Alignment identifier is 4/B |
| 7548 | | |
| 7549 | | > show #4/A cartoons |
| 7550 | | |
| 7551 | | > select #4/B:138 |
| 7552 | | |
| 7553 | | 6 atoms, 5 bonds, 1 residue, 1 model selected |
| 7554 | | |
| 7555 | | > select #4/B |
| 7556 | | |
| 7557 | | 5767 atoms, 5902 bonds, 707 residues, 1 model selected |
| 7558 | | |
| 7559 | | > open "C:/Users/Jack Botting/Documents/alphafold |
| 7560 | | > results/HpyloripflB_4cab4/HpyloripflB_4cab4_relaxed_rank_001_alphafold2_ptm_model_4_seed_000.pdb" |
| 7561 | | |
| 7562 | | Chain information for |
| 7563 | | HpyloripflB_4cab4_relaxed_rank_001_alphafold2_ptm_model_4_seed_000.pdb #15 |
| 7564 | | --- |
| 7565 | | Chain | Description |
| 7566 | | A | No description available |
| 7567 | | |
| 7568 | | |
| 7569 | | > mmaker #15 to #4 |
| 7570 | | |
| 7571 | | Parameters |
| 7572 | | --- |
| 7573 | | Chain pairing | bb |
| 7574 | | Alignment algorithm | Needleman-Wunsch |
| 7575 | | Similarity matrix | BLOSUM-62 |
| 7576 | | SS fraction | 0.3 |
| 7577 | | Gap open (HH/SS/other) | 18/18/6 |
| 7578 | | Gap extend | 1 |
| 7579 | | SS matrix | | | H | S | O |
| 7580 | | ---|---|---|--- |
| 7581 | | H | 6 | -9 | -6 |
| 7582 | | S | | 6 | -6 |
| 7583 | | O | | | 4 |
| 7584 | | Iteration cutoff | 2 |
| 7585 | | |
| 7586 | | Matchmaker pflB , chain B (#4) with |
| 7587 | | HpyloripflB_4cab4_relaxed_rank_001_alphafold2_ptm_model_4_seed_000.pdb, chain |
| 7588 | | A (#15), sequence alignment score = 3570.7 |
| 7589 | | RMSD between 467 pruned atom pairs is 1.012 angstroms; (across all 707 pairs: |
| 7590 | | 6.069) |
| 7591 | | |
| 7592 | | |
| 7593 | | > open "C:/Users/Jack Botting/Documents/alphafold |
| 7594 | | > results/pflAB/fold_pylori_pfla_pflb/fold_pylori_pfla_pflb_model_0.cif" |
| 7595 | | |
| 7596 | | Chain information for fold_pylori_pfla_pflb_model_0.cif #16 |
| 7597 | | --- |
| 7598 | | Chain | Description |
| 7599 | | A | . |
| 7600 | | B | . |
| 7601 | | |
| 7602 | | |
| 7603 | | > mmaker #16 to #4 |
| 7604 | | |
| 7605 | | Parameters |
| 7606 | | --- |
| 7607 | | Chain pairing | bb |
| 7608 | | Alignment algorithm | Needleman-Wunsch |
| 7609 | | Similarity matrix | BLOSUM-62 |
| 7610 | | SS fraction | 0.3 |
| 7611 | | Gap open (HH/SS/other) | 18/18/6 |
| 7612 | | Gap extend | 1 |
| 7613 | | SS matrix | | | H | S | O |
| 7614 | | ---|---|---|--- |
| 7615 | | H | 6 | -9 | -6 |
| 7616 | | S | | 6 | -6 |
| 7617 | | O | | | 4 |
| 7618 | | Iteration cutoff | 2 |
| 7619 | | |
| 7620 | | Matchmaker pflB , chain B (#4) with fold_pylori_pfla_pflb_model_0.cif, chain B |
| 7621 | | (#16), sequence alignment score = 3709.9 |
| 7622 | | RMSD between 707 pruned atom pairs is 0.000 angstroms; (across all 707 pairs: |
| 7623 | | 0.000) |
| 7624 | | |
| 7625 | | |
| 7626 | | > hide #15 models |
| 7627 | | |
| 7628 | | > hide #!4 models |
| 7629 | | |
| 7630 | | > show #!4 models |
| 7631 | | |
| 7632 | | > hide #!4 models |
| 7633 | | |
| 7634 | | > show #!4 models |
| 7635 | | |
| 7636 | | > hide #!4 models |
| 7637 | | |
| 7638 | | > show #!4 models |
| 7639 | | |
| 7640 | | > hide #!4 models |
| 7641 | | |
| 7642 | | > show #!4 models |
| 7643 | | |
| 7644 | | > hide #!4 models |
| 7645 | | |
| 7646 | | > show #!1.2 models |
| 7647 | | |
| 7648 | | > hide #!1.2 models |
| 7649 | | |
| 7650 | | > hide #16 models |
| 7651 | | |
| 7652 | | > show #!4 models |
| 7653 | | |
| 7654 | | > rename #4 "pflB (from pflA-pflB)" |
| 7655 | | |
| 7656 | | > view orient |
| 7657 | | |
| 7658 | | > sym #4 C18 center #1.1 |
| 7659 | | |
| 7660 | | Invalid "center" argument: Center argument has no object bounds |
| 7661 | | |
| 7662 | | > show #!1.1 models |
| 7663 | | |
| 7664 | | > sym #4 C18 center #1.1 |
| 7665 | | |
| 7666 | | Made 18 graphical clones for pflB (from pflA-pflB) symmetry C18 |
| 7667 | | |
| 7668 | | > select clear |
| 7669 | | |
| 7670 | | > show #19-36 |
| 7671 | | |
| 7672 | | > close #15-16 |
| 7673 | | |
| 7674 | | > show #!9 models |
| 7675 | | |
| 7676 | | > show #!8 models |
| 7677 | | |
| 7678 | | > show #!7 models |
| 7679 | | |
| 7680 | | > show #!3 models |
| 7681 | | |
| 7682 | | > show #!2 models |
| 7683 | | |
| 7684 | | > save "C:/Users/Jack Botting/Documents/Chimera/Saved Sessions/pylori flgY |
| 7685 | | > pflA pflB.cxs" |
| 7686 | | |
| 7687 | | ——— End of log from Mon Jun 10 09:14:27 2024 ——— |
| 7688 | | |
| 7689 | | opened ChimeraX session |
| 7690 | | |
| 7691 | | > close session |
| 7692 | | |
| 7693 | | > open /Volumes/Backup-95/Chimera-2023/PflB-PflA-project/Start- |
| 7694 | | > from_June2024/Sep11_2023/PflA-2.1A-230911.mrc |
| 7695 | | |
| 7696 | | Opened PflA-2.1A-230911.mrc as #1, grid size 240,240,240, pixel 2.1, shown at |
| 7697 | | level 4.29, step 1, values float32 |
| 7698 | | |
| 7699 | | > volume #1 level 0.04668 |
| 7700 | | |
| 7701 | | > ui tool show "Segment Map" |
| 7702 | | |
| 7703 | | Segmenting PflA-2.1A-230911.mrc, density threshold 0.046682 |
| 7704 | | Showing 295 region surfaces |
| 7705 | | 3353 watershed regions, grouped to 295 regions |
| 7706 | | Showing PflA-2.1A-230911.seg - 295 regions, 295 surfaces |
| 7707 | | Drag select of 4917, 2456 of 27676 triangles, 4914, 4515 of 23484 triangles, |
| 7708 | | 4777, 20659 of 21324 triangles, 4913, 4693, 9326 of 19524 triangles, 4688, |
| 7709 | | 3362 of 20760 triangles, 4953, 9370 of 20004 triangles, 4898, 7845 of 20040 |
| 7710 | | triangles, 4966, 8000 of 19788 triangles, 4947, 4324 of 18268 triangles, 4672, |
| 7711 | | 6676 of 18776 triangles, 4958, 11735 of 19080 triangles, 4965, 7488 of 16572 |
| 7712 | | triangles, 4923, 10655 of 19480 triangles, 4742, 6902 of 18496 triangles, |
| 7713 | | 4969, 7819 of 16128 triangles, 4894, 5986 of 19516 triangles, 4915, 4711 of |
| 7714 | | 16732 triangles, 4897, 6387 of 17880 triangles, 4971, 8820 of 18612 triangles, |
| 7715 | | 4955, 6160 of 17068 triangles, 4960, 3460 of 15704 triangles, 4940, 5627 of |
| 7716 | | 15616 triangles, 4957, 4194 of 15808 triangles, 4868, 7876 of 16436 triangles, |
| 7717 | | 4905, 8875 of 16712 triangles, 4922, 4947 of 15528 triangles, 4674, 6630 of |
| 7718 | | 14628 triangles, 4954, 3366 of 14652 triangles, 4951, 3686 of 14820 triangles, |
| 7719 | | 4771, 705 of 15692 triangles, 4721, 5425 of 14464 triangles, 4941, 5325 of |
| 7720 | | 15676 triangles, 4972, 6301 of 14184 triangles, 4759, 7430 of 13076 triangles, |
| 7721 | | 4946, 8730 of 13764 triangles, 4743, 3311 of 13128 triangles, 4936, 7780 of |
| 7722 | | 13408 triangles, 4798, 1997 of 14384 triangles, 4945, 4944, 5942 of 12836 |
| 7723 | | triangles, 4896, 4904, 7882 of 13164 triangles, 4967, 4216 of 13064 triangles, |
| 7724 | | 4800, 6473 of 13300 triangles, 4683, 5380 of 13212 triangles, 4797, 4958 of |
| 7725 | | 12652 triangles, 4950, 4924, 7745 of 14044 triangles, 4860, 4700, 4131 of |
| 7726 | | 12816 triangles, 4712, 3616 of 12332 triangles, 4714, 4338 of 13132 triangles, |
| 7727 | | 4938, 2263 of 12916 triangles, 4918, 5703 of 11432 triangles, 4773, 8204 of |
| 7728 | | 12228 triangles, 4722, 4122 of 11564 triangles, 4751, 4591 of 11416 triangles, |
| 7729 | | 4772, 1690 of 11660 triangles, 4935, 6125 of 12532 triangles, 4849, 4682, 4995 |
| 7730 | | of 10644 triangles, 4942, 6983 of 10200 triangles, 4943, 4515 of 10976 |
| 7731 | | triangles, 4921, 3815 of 10060 triangles, 4853, 6928 of 10608 triangles, 4699, |
| 7732 | | 710 of 11424 triangles, 4906, 3249 of 10540 triangles, 4902, 8613 of 12076 |
| 7733 | | triangles, 4119, 4690 of 9840 triangles, 4843, 4704, 7216 of 9924 triangles, |
| 7734 | | 4750, 5791 of 8764 triangles, 4710, 2416 of 9272 triangles, 4795, 6634 of 9780 |
| 7735 | | triangles, 4864, 4696, 5466 of 9492 triangles, 4701, 5641 of 9124 triangles, |
| 7736 | | 4307, 4170 of 8288 triangles, 4774, 4815 of 9908 triangles, 4839, 1788 of 8044 |
| 7737 | | triangles, 4709, 3439 of 8564 triangles, 4702, 2046 of 9240 triangles, 4318, |
| 7738 | | 5032 of 9276 triangles, 4724, 4563 of 8056 triangles, 4851, 2899 of 8268 |
| 7739 | | triangles, 4837, 4194, 5032 of 7952 triangles, 4113, 1833 of 6928 triangles, |
| 7740 | | 4767, 2476 of 7772 triangles, 4760, 4779 of 7528 triangles, 4749, 3903 of 7860 |
| 7741 | | triangles, 4207, 1641 of 8160 triangles, 4270, 4484 of 7056 triangles, 4808, |
| 7742 | | 3328 of 7512 triangles, 4414, 540 of 6884 triangles, 4345, 1609 of 6432 |
| 7743 | | triangles, 4167, 854 of 4872 triangles, 4761, 4235 of 6232 triangles, 3403, |
| 7744 | | 343 of 4816 triangles, 4601, 3703 of 4892 triangles, 4098, 1092 of 4880 |
| 7745 | | triangles, 1 PflA-2.1A-230911.mrc |
| 7746 | | Grouped 102 regions |
| 7747 | | |
| 7748 | | > hide #!1 models |
| 7749 | | |
| 7750 | | Drag select of 4903, 8878 of 34032 triangles, 4752, 24936 of 31216 triangles, |
| 7751 | | 4685, 4861, 8260 of 15472 triangles, 4757, 7852 of 15336 triangles, 4729, 4922 |
| 7752 | | of 11360 triangles, 4779, 1926 of 11008 triangles, 4708, 4745, 2272 of 6484 |
| 7753 | | triangles, 4620 |
| 7754 | | |
| 7755 | | > select add #2.107 |
| 7756 | | |
| 7757 | | 14 models selected |
| 7758 | | Grouped 12 regions |
| 7759 | | |
| 7760 | | > select add #2.83 |
| 7761 | | |
| 7762 | | 4 models selected |
| 7763 | | |
| 7764 | | > select add #2.197 |
| 7765 | | |
| 7766 | | 5 models selected |
| 7767 | | |
| 7768 | | > select add #2.106 |
| 7769 | | |
| 7770 | | 6 models selected |
| 7771 | | |
| 7772 | | > select add #2.148 |
| 7773 | | |
| 7774 | | 7 models selected |
| 7775 | | |
| 7776 | | > select add #2.229 |
| 7777 | | |
| 7778 | | 8 models selected |
| 7779 | | |
| 7780 | | > select add #2.230 |
| 7781 | | |
| 7782 | | 9 models selected |
| 7783 | | |
| 7784 | | > select add #2.191 |
| 7785 | | |
| 7786 | | 10 models selected |
| 7787 | | |
| 7788 | | > select add #2.138 |
| 7789 | | |
| 7790 | | 11 models selected |
| 7791 | | |
| 7792 | | > select add #2.228 |
| 7793 | | |
| 7794 | | 12 models selected |
| 7795 | | |
| 7796 | | > select add #2.164 |
| 7797 | | |
| 7798 | | 13 models selected |
| 7799 | | |
| 7800 | | > select add #2.216 |
| 7801 | | |
| 7802 | | 14 models selected |
| 7803 | | Grouped 12 regions |
| 7804 | | |
| 7805 | | > select add #2.1 |
| 7806 | | |
| 7807 | | 4 models selected |
| 7808 | | |
| 7809 | | > select add #2.103 |
| 7810 | | |
| 7811 | | 5 models selected |
| 7812 | | |
| 7813 | | > select add #2.7 |
| 7814 | | |
| 7815 | | 6 models selected |
| 7816 | | |
| 7817 | | > select add #2.2 |
| 7818 | | |
| 7819 | | 7 models selected |
| 7820 | | |
| 7821 | | > select add #2.206 |
| 7822 | | |
| 7823 | | 8 models selected |
| 7824 | | |
| 7825 | | > select add #2.23 |
| 7826 | | |
| 7827 | | 9 models selected |
| 7828 | | |
| 7829 | | > select add #2.11 |
| 7830 | | |
| 7831 | | 10 models selected |
| 7832 | | |
| 7833 | | > select add #2.53 |
| 7834 | | |
| 7835 | | 11 models selected |
| 7836 | | |
| 7837 | | > select add #2.9 |
| 7838 | | |
| 7839 | | 12 models selected |
| 7840 | | |
| 7841 | | > select add #2.49 |
| 7842 | | |
| 7843 | | 13 models selected |
| 7844 | | |
| 7845 | | > select subtract #2.49 |
| 7846 | | |
| 7847 | | 12 models selected |
| 7848 | | |
| 7849 | | > select add #2.49 |
| 7850 | | |
| 7851 | | 13 models selected |
| 7852 | | |
| 7853 | | > select add #2.20 |
| 7854 | | |
| 7855 | | 14 models selected |
| 7856 | | |
| 7857 | | > select add #2.116 |
| 7858 | | |
| 7859 | | 15 models selected |
| 7860 | | |
| 7861 | | > select add #2.212 |
| 7862 | | |
| 7863 | | 16 models selected |
| 7864 | | |
| 7865 | | > select add #2.179 |
| 7866 | | |
| 7867 | | 17 models selected |
| 7868 | | |
| 7869 | | > select subtract #2.179 |
| 7870 | | |
| 7871 | | 16 models selected |
| 7872 | | |
| 7873 | | > select add #2.179 |
| 7874 | | |
| 7875 | | 17 models selected |
| 7876 | | |
| 7877 | | > select add #2.176 |
| 7878 | | |
| 7879 | | 18 models selected |
| 7880 | | |
| 7881 | | > select add #2.266 |
| 7882 | | |
| 7883 | | 19 models selected |
| 7884 | | |
| 7885 | | > select add #2.177 |
| 7886 | | |
| 7887 | | 20 models selected |
| 7888 | | |
| 7889 | | > select add #2.147 |
| 7890 | | |
| 7891 | | 21 models selected |
| 7892 | | |
| 7893 | | > select add #2.209 |
| 7894 | | |
| 7895 | | 22 models selected |
| 7896 | | |
| 7897 | | > select add #2.96 |
| 7898 | | |
| 7899 | | 23 models selected |
| 7900 | | |
| 7901 | | > select add #2.125 |
| 7902 | | |
| 7903 | | 24 models selected |
| 7904 | | |
| 7905 | | > select add #2.187 |
| 7906 | | |
| 7907 | | 25 models selected |
| 7908 | | |
| 7909 | | > select add #2.113 |
| 7910 | | |
| 7911 | | 26 models selected |
| 7912 | | |
| 7913 | | > select add #2.141 |
| 7914 | | |
| 7915 | | 27 models selected |
| 7916 | | |
| 7917 | | > select add #2.259 |
| 7918 | | |
| 7919 | | 28 models selected |
| 7920 | | |
| 7921 | | > select add #2.287 |
| 7922 | | |
| 7923 | | 29 models selected |
| 7924 | | |
| 7925 | | > select add #2.104 |
| 7926 | | |
| 7927 | | 30 models selected |
| 7928 | | |
| 7929 | | > select add #2.286 |
| 7930 | | |
| 7931 | | 31 models selected |
| 7932 | | |
| 7933 | | > select add #2.196 |
| 7934 | | |
| 7935 | | 32 models selected |
| 7936 | | |
| 7937 | | > select add #2.95 |
| 7938 | | |
| 7939 | | 33 models selected |
| 7940 | | |
| 7941 | | > select add #2.10 |
| 7942 | | |
| 7943 | | 34 models selected |
| 7944 | | |
| 7945 | | > select add #2.262 |
| 7946 | | |
| 7947 | | 35 models selected |
| 7948 | | |
| 7949 | | > select add #2.221 |
| 7950 | | |
| 7951 | | 36 models selected |
| 7952 | | |
| 7953 | | > select add #2.167 |
| 7954 | | |
| 7955 | | 37 models selected |
| 7956 | | |
| 7957 | | > select add #2.264 |
| 7958 | | |
| 7959 | | 38 models selected |
| 7960 | | |
| 7961 | | > select subtract #2.167 |
| 7962 | | |
| 7963 | | 37 models selected |
| 7964 | | |
| 7965 | | > select subtract #2.221 |
| 7966 | | |
| 7967 | | 36 models selected |
| 7968 | | |
| 7969 | | > select subtract #2.10 |
| 7970 | | |
| 7971 | | 35 models selected |
| 7972 | | |
| 7973 | | > select add #2.271 |
| 7974 | | |
| 7975 | | 36 models selected |
| 7976 | | |
| 7977 | | > select add #2.283 |
| 7978 | | |
| 7979 | | 37 models selected |
| 7980 | | |
| 7981 | | > select add #2.199 |
| 7982 | | |
| 7983 | | 38 models selected |
| 7984 | | |
| 7985 | | > select add #2.112 |
| 7986 | | |
| 7987 | | 39 models selected |
| 7988 | | |
| 7989 | | > select subtract #2.112 |
| 7990 | | |
| 7991 | | 38 models selected |
| 7992 | | |
| 7993 | | > select add #2.256 |
| 7994 | | |
| 7995 | | 39 models selected |
| 7996 | | |
| 7997 | | > select add #2.236 |
| 7998 | | |
| 7999 | | 40 models selected |
| 8000 | | |
| 8001 | | > select add #2.278 |
| 8002 | | |
| 8003 | | 41 models selected |
| 8004 | | |
| 8005 | | > select add #2.289 |
| 8006 | | |
| 8007 | | 42 models selected |
| 8008 | | |
| 8009 | | > select add #2.149 |
| 8010 | | |
| 8011 | | 43 models selected |
| 8012 | | |
| 8013 | | > select add #2.198 |
| 8014 | | |
| 8015 | | 44 models selected |
| 8016 | | |
| 8017 | | > select add #2.165 |
| 8018 | | |
| 8019 | | 45 models selected |
| 8020 | | |
| 8021 | | > select add #2.250 |
| 8022 | | |
| 8023 | | 46 models selected |
| 8024 | | |
| 8025 | | > select add #2.279 |
| 8026 | | |
| 8027 | | 47 models selected |
| 8028 | | |
| 8029 | | > select add #2.181 |
| 8030 | | |
| 8031 | | 48 models selected |
| 8032 | | |
| 8033 | | > select add #2.219 |
| 8034 | | |
| 8035 | | 49 models selected |
| 8036 | | |
| 8037 | | > select add #2.294 |
| 8038 | | |
| 8039 | | 50 models selected |
| 8040 | | Grouped 48 regions |
| 8041 | | Opened PflA-2.1A-230911_imasked as #3, grid size 240,240,240, pixel 2.1, shown |
| 8042 | | at step 1, values float32 |
| 8043 | | Segmenting PflA-2.1A-230911_imasked, density threshold 0.046682 |
| 8044 | | Showing 122 region surfaces |
| 8045 | | 793 watershed regions, grouped to 122 regions |
| 8046 | | Showing PflA-2.seg - 122 regions, 122 surfaces |
| 8047 | | Showing 122 region surfaces |
| 8048 | | |
| 8049 | | > select #2.105 |
| 8050 | | |
| 8051 | | 1 model selected |
| 8052 | | |
| 8053 | | > select add #2.8 |
| 8054 | | |
| 8055 | | 2 models selected |
| 8056 | | |
| 8057 | | > select add #2.21 |
| 8058 | | |
| 8059 | | 3 models selected |
| 8060 | | |
| 8061 | | > select add #2.30 |
| 8062 | | |
| 8063 | | 4 models selected |
| 8064 | | |
| 8065 | | > select add #2.25 |
| 8066 | | |
| 8067 | | 5 models selected |
| 8068 | | Grouped 5 regions |
| 8069 | | |
| 8070 | | > select add #2.22 |
| 8071 | | |
| 8072 | | 2 models selected |
| 8073 | | Grouped 2 regions |
| 8074 | | |
| 8075 | | > select add #2.61 |
| 8076 | | |
| 8077 | | 2 models selected |
| 8078 | | |
| 8079 | | > select add #2.44 |
| 8080 | | |
| 8081 | | 3 models selected |
| 8082 | | |
| 8083 | | > select add #2.75 |
| 8084 | | |
| 8085 | | 4 models selected |
| 8086 | | |
| 8087 | | > close session |
| 8088 | | |
| 8089 | | > open /Volumes/Backup-95/Chimera-2023/PflB-PflA-project/Start- |
| 8090 | | > from_June2024/For-FlgY-model_June2024/Rev-Hp-PflB.mrc |
| 8091 | | |
| 8092 | | Opened Rev-Hp-PflB.mrc as #1, grid size 220,220,220, pixel 4.3, shown at level |
| 8093 | | 3.57, step 1, values float32 |
| 8094 | | |
| 8095 | | > volume #1 level 0.4885 |
| 8096 | | |
| 8097 | | > volume #1 level 0.3839 |
| 8098 | | |
| 8099 | | > ui tool show "Segment Map" |
| 8100 | | |
| 8101 | | Segmenting Rev-Hp-PflB.mrc, density threshold 0.383927 |
| 8102 | | Showing 764 region surfaces |
| 8103 | | 5878 watershed regions, grouped to 764 regions |
| 8104 | | Showing Rev-Hp-PflB.seg - 764 regions, 764 surfaces |
| 8105 | | Drag select of 8536, 57 of 28120 triangles, 8544, 8666 of 26268 triangles, |
| 8106 | | 8653, 35203 of 39008 triangles, 8637, 8615, 8046, 8677, 8734, 6946 of 18500 |
| 8107 | | triangles, 8562, 3040 of 19812 triangles, 8652, 10841 of 18308 triangles, |
| 8108 | | 8740, 3627 of 16592 triangles, 8593, 8627, 8539, 7230 of 16668 triangles, |
| 8109 | | 8655, 8678, 145 of 16336 triangles, 8634, 8669, 8181, 64 of 17716 triangles, |
| 8110 | | 8012, 21724 of 22204 triangles, 8076, 4510 of 15852 triangles, 8712, 8665, |
| 8111 | | 8533, 3272 of 14972 triangles, 8668, 8651, 8578, 8674, 8670, 8324, 8801, 8071, |
| 8112 | | 1110 of 13696 triangles, 8599, 140 of 12148 triangles, 8426, 8565, 8586, 8263, |
| 8113 | | 8644, 8727, 8540, 5474 of 12288 triangles, 8224, 5750 of 11444 triangles, |
| 8114 | | 8774, 8058, 8777, 8115, 8711, 6132 of 11512 triangles, 8623, 8640, 8722, 8555, |
| 8115 | | 3924 of 10388 triangles, 8091, 8528, 235 of 10756 triangles, 8325, 3952 of |
| 8116 | | 11704 triangles, 8597, 8260, 8671, 8738, 8770, 8610, 860 of 12196 triangles, |
| 8117 | | 8664, 8537, 8359, 5226 of 10624 triangles, 8621, 176 of 10412 triangles, 8110, |
| 8118 | | 8735, 796 of 9768 triangles, 8374, 3298 of 9860 triangles, 8203, 29 of 9844 |
| 8119 | | triangles, 8120, 8622, 15682 of 15772 triangles, 8701, 9932 of 10512 |
| 8120 | | triangles, 8366, 8373, 1211 of 10100 triangles, 8721, 8629, 7219, 8541, 8002, |
| 8121 | | 8243, 102 of 8284 triangles, 7452, 8538, 488 of 8584 triangles, 8710, 8370, |
| 8122 | | 147 of 8780 triangles, 8096, 8617, 8694, 8518, 3708 of 8916 triangles, 8059, |
| 8123 | | 8784, 8289, 8001, 545 of 8676 triangles, 8566, 6306 of 9552 triangles, 8093, |
| 8124 | | 8730, 8089, 6124 of 8420 triangles, 8595, 1655 of 9352 triangles, 8084, 8545, |
| 8125 | | 1084 of 8600 triangles, 8087, 397 of 9180 triangles, 8080, 6573 of 8792 |
| 8126 | | triangles, 8164, 9847 of 10612 triangles, 8527, 3922 of 8004 triangles, 8682, |
| 8127 | | 8350, 8500, 8147, 4490 of 7536 triangles, 8725, 8416, 8050, 8090, 8067, 3257 |
| 8128 | | of 7488 triangles, 8590, 3285 of 7856 triangles, 7436, 7302, 3983 of 6620 |
| 8129 | | triangles, 8479, 8709, 5093 of 7868 triangles, 8786, 8556, 1289 of 7084 |
| 8130 | | triangles, 8395, 7624, 6762 of 7068 triangles, 8245, 3401 of 6688 triangles, |
| 8131 | | 8258, 8225, 601 of 6612 triangles, 8762, 7082, 3213 of 6704 triangles, 8608, |
| 8132 | | 8732, 7698, 2847 of 6596 triangles, 7287, 8543, 3440 of 6372 triangles, 7111, |
| 8133 | | 1387 of 7252 triangles, 7167, 5034 of 6684 triangles, 7300, 13 of 7644 |
| 8134 | | triangles, 7130, 3210 of 6448 triangles, 7638, 7281, 4201 of 6464 triangles, |
| 8135 | | 8204, 648 of 6956 triangles, 7101, 8752, 8371, 4196 of 6748 triangles, 8375, |
| 8136 | | 2301 of 7088 triangles, 7092, 8393, 3571 of 6144 triangles, 7151, 4724 of 6004 |
| 8137 | | triangles, 8383, 7038, 2962 of 5624 triangles, 8364, 8016, 4479 of 5636 |
| 8138 | | triangles, 8475, 8335, 402 of 6264 triangles, 8038, 8613, 8020, 8631, 8112, |
| 8139 | | 464 of 5084 triangles, 7217, 7172, 3851 of 5596 triangles, 7678, 901 of 6008 |
| 8140 | | triangles, 8354, 8619, 8448, 8009, 2956 of 5524 triangles, 8720, 7376, 8625, |
| 8141 | | 8358, 7574, 8311, 4143, 6637, 3044 of 5024 triangles, 7129, 3273 of 4648 |
| 8142 | | triangles, 7675, 488 of 5476 triangles, 7380, 8800, 7164, 1731 of 4936 |
| 8143 | | triangles, 7607, 1357 of 5392 triangles, 7112, 2546 of 4920 triangles, 8776, |
| 8144 | | 7294, 3017 of 5008 triangles, 8357, 8072, 2411 of 5240 triangles, 7387, 7591, |
| 8145 | | 8184, 7234, 6746, 693 of 4172 triangles, 5914, 17 of 4436 triangles, 7896, |
| 8146 | | 8508, 8799, 7657, 461 of 3992 triangles, 8739, 6734, 338 of 3520 triangles, |
| 8147 | | 8097, 8620, 4489 of 4496 triangles, 8291, 7542, 8299, 8753, 8626, 3104 of 3140 |
| 8148 | | triangles, 6816, 8294, 8248, 5313, 7960, 5865, 867 of 892 triangles, 7957, |
| 8149 | | 5868, 1 Rev-Hp-PflB.mrc |
| 8150 | | |
| 8151 | | > hide #!1 models |
| 8152 | | |
| 8153 | | > select add #2.134 |
| 8154 | | |
| 8155 | | 210 models selected |
| 8156 | | |
| 8157 | | > select subtract #2.134 |
| 8158 | | |
| 8159 | | 209 models selected |
| 8160 | | |
| 8161 | | > select add #2.89 |
| 8162 | | |
| 8163 | | 210 models selected |
| 8164 | | |
| 8165 | | > select add #2.15 |
| 8166 | | |
| 8167 | | 211 models selected |
| 8168 | | |
| 8169 | | > select add #2.5 |
| 8170 | | |
| 8171 | | 212 models selected |
| 8172 | | |
| 8173 | | > select add #2.198 |
| 8174 | | |
| 8175 | | 213 models selected |
| 8176 | | |
| 8177 | | > select add #2.178 |
| 8178 | | |
| 8179 | | 214 models selected |
| 8180 | | |
| 8181 | | > select add #2.338 |
| 8182 | | |
| 8183 | | 215 models selected |
| 8184 | | |
| 8185 | | > select add #2.248 |
| 8186 | | |
| 8187 | | 216 models selected |
| 8188 | | |
| 8189 | | > select add #2.419 |
| 8190 | | |
| 8191 | | 217 models selected |
| 8192 | | |
| 8193 | | > select add #2.134 |
| 8194 | | |
| 8195 | | 218 models selected |
| 8196 | | |
| 8197 | | > select add #2.503 |
| 8198 | | |
| 8199 | | 219 models selected |
| 8200 | | |
| 8201 | | > select add #2.49 |
| 8202 | | |
| 8203 | | 220 models selected |
| 8204 | | |
| 8205 | | > select add #2.268 |
| 8206 | | |
| 8207 | | 221 models selected |
| 8208 | | |
| 8209 | | > select add #2.250 |
| 8210 | | |
| 8211 | | 222 models selected |
| 8212 | | |
| 8213 | | > select add #2.466 |
| 8214 | | |
| 8215 | | 223 models selected |
| 8216 | | |
| 8217 | | > select add #2.478 |
| 8218 | | |
| 8219 | | 224 models selected |
| 8220 | | |
| 8221 | | > select add #2.96 |
| 8222 | | |
| 8223 | | 225 models selected |
| 8224 | | |
| 8225 | | > select add #2.131 |
| 8226 | | |
| 8227 | | 226 models selected |
| 8228 | | |
| 8229 | | > select add #2.57 |
| 8230 | | |
| 8231 | | 227 models selected |
| 8232 | | |
| 8233 | | > select add #2.298 |
| 8234 | | |
| 8235 | | 228 models selected |
| 8236 | | |
| 8237 | | > select add #2.406 |
| 8238 | | |
| 8239 | | 229 models selected |
| 8240 | | |
| 8241 | | > select add #2.426 |
| 8242 | | |
| 8243 | | 230 models selected |
| 8244 | | |
| 8245 | | > select add #2.256 |
| 8246 | | |
| 8247 | | 231 models selected |
| 8248 | | |
| 8249 | | > select add #2.286 |
| 8250 | | |
| 8251 | | 232 models selected |
| 8252 | | |
| 8253 | | > select add #2.212 |
| 8254 | | |
| 8255 | | 233 models selected |
| 8256 | | |
| 8257 | | > select add #2.398 |
| 8258 | | |
| 8259 | | 234 models selected |
| 8260 | | |
| 8261 | | > select add #2.191 |
| 8262 | | |
| 8263 | | 235 models selected |
| 8264 | | |
| 8265 | | > select add #2.352 |
| 8266 | | |
| 8267 | | 236 models selected |
| 8268 | | |
| 8269 | | > select add #2.448 |
| 8270 | | |
| 8271 | | 237 models selected |
| 8272 | | |
| 8273 | | > select add #2.342 |
| 8274 | | |
| 8275 | | 238 models selected |
| 8276 | | |
| 8277 | | > select add #2.158 |
| 8278 | | |
| 8279 | | 239 models selected |
| 8280 | | |
| 8281 | | > select add #2.200 |
| 8282 | | |
| 8283 | | 240 models selected |
| 8284 | | |
| 8285 | | > select add #2.150 |
| 8286 | | |
| 8287 | | 241 models selected |
| 8288 | | Drag select of 8658, 62 of 26828 triangles, 8743, 16616 of 20440 triangles, |
| 8289 | | 8624, 55 of 26256 triangles, 8559, 8628, 95 of 20304 triangles, 8769, 12547 of |
| 8290 | | 15180 triangles, 8706, 84 of 17300 triangles, 8515, 15 of 19696 triangles, |
| 8291 | | 8750, 11009 of 13028 triangles, 8729, 9544 of 12292 triangles, 8125, 10602 of |
| 8292 | | 11560 triangles, 8249, 8016 of 11676 triangles, 8787, 8524, 3485 of 10364 |
| 8293 | | triangles, 8273, 9486 of 10444 triangles, 8723, 7844 of 10284 triangles, 8201, |
| 8294 | | 8252, 8332, 7876 of 8376 triangles, 8352, 8657 of 8704 triangles, 7502, 8716, |
| 8295 | | 7547 of 7940 triangles, 8529, 8639, 7878, 8635, 24 of 14008 triangles, 8339, |
| 8296 | | 7437 of 10124 triangles, 8129, 6435 of 7852 triangles, 8583, 154 of 12500 |
| 8297 | | triangles, 8605, 7420, 8612, 8574, 341 of 12536 triangles, 8764, 4049 of 7428 |
| 8298 | | triangles, 8748, 8534, 8761, 1403 of 6948 triangles, 8768, 7741, 7602, 8347, |
| 8299 | | 8523, 3210 of 7180 triangles, 8714, 8296, 7873, 1154 of 6540 triangles, 8233, |
| 8300 | | 8007, 453 of 11036 triangles, 8319, 393 of 6688 triangles, 8765, 847 of 6412 |
| 8301 | | triangles, 8477, 8277, 2540 of 7128 triangles, 8589, 3913 of 6304 triangles, |
| 8302 | | 8428, 5592 of 6196 triangles, 8054, 1518 of 7100 triangles, 8356, 845 of 6604 |
| 8303 | | triangles, 8118, 6114 of 7296 triangles, 8611, 5887 of 8228 triangles, 8679, |
| 8304 | | 8253, 8642, 949 of 9196 triangles, 8318, 4620 of 5372 triangles, 8802, 8409, |
| 8305 | | 8327, 2390 of 6412 triangles, 7178, 2642 of 5336 triangles, 7188, 2590 of 6288 |
| 8306 | | triangles, 7752, 565 of 6664 triangles, 7447, 3881 of 6288 triangles, 6872, |
| 8307 | | 1489 of 5080 triangles, 8334, 8785, 487 of 5752 triangles, 8042, 3057 of 5756 |
| 8308 | | triangles, 8159, 898 of 5388 triangles, 8519, 2773 of 4980 triangles, 8797, |
| 8309 | | 3138 of 5580 triangles, 8471, 1546 of 5312 triangles, 916, 1207 of 4716 |
| 8310 | | triangles, 6864, 2546 of 4384 triangles, 8766, 3991 of 5488 triangles, 8525, |
| 8311 | | 225 of 4368 triangles, 8489, 8737, 8064, 1399 of 4200 triangles, 7842, 2902 of |
| 8312 | | 4644 triangles, 8469, 1189 of 4900 triangles, 8633, 8783, 6079, 906 of 4728 |
| 8313 | | triangles, 8741, 908, 1810 of 3960 triangles, 907, 1695 of 3892 triangles, |
| 8314 | | 6070, 1496 of 3916 triangles, 8713, 7705, 8043, 276 of 3812 triangles, 8452, |
| 8315 | | 8742, 8648, 6212 of 7104 triangles, 7947, 179 of 3880 triangles, 8804, 4471 of |
| 8316 | | 6556 triangles, 7199, 2014 of 3356 triangles, 6144, 25 of 3708 triangles, |
| 8317 | | 8771, 5728 of 5820 triangles, 8381, 378 of 6144 triangles, 8660, 2059 of 7024 |
| 8318 | | triangles, 922, 901 of 3532 triangles, 8521, 2933 of 6164 triangles, 8401, |
| 8319 | | 7196, 2679 of 3556 triangles, 900, 2048 of 3584 triangles, 7849, 1716 of 3524 |
| 8320 | | triangles, 8460, 959, 1645 of 3240 triangles, 448, 7847, 2089 of 3616 |
| 8321 | | triangles, 7841, 2216 of 3624 triangles, 8681, 2801 of 5252 triangles, 7930, |
| 8322 | | 8550, 897 of 5832 triangles, 7843, 1487 of 3536 triangles, 8782, 1132 of 5748 |
| 8323 | | triangles, 7751, 888 of 3332 triangles, 8530, 8229, 8719, 4778 of 5096 |
| 8324 | | triangles, 6064, 1530 of 2796 triangles, 8662, 1262 of 4756 triangles, 8548, |
| 8325 | | 3024 of 3744 triangles, 8546, 223 of 4436 triangles, 8708, 6716, 1431 of 2684 |
| 8326 | | triangles, 8542, 7589, 8328, 8747, 6941, 347 of 2496 triangles, 868, 2238 of |
| 8327 | | 2536 triangles, 8531, 8520, 3436 of 3812 triangles, 6334, 2427 of 2632 |
| 8328 | | triangles, 8788, 8704, 8789, 8636, 8577, 7899, 7257, 8213, 8790, 8705, 8717, |
| 8329 | | 7742, 2008 of 2132 triangles, 8667, 2777 of 2864 triangles, 8297, 140 of 2780 |
| 8330 | | triangles, 8576, 8803, 8155, 2292 of 2376 triangles, 8170, 1837 of 2068 |
| 8331 | | triangles, 7710, 8794, 8609, 8758, 8798, 7865, 864 of 2092 triangles, 7733, |
| 8332 | | 8215, 466, 8231, 6888, 8600, 1978 of 2256 triangles, 6678, 8715, 8603, 8481, |
| 8333 | | 7709, 7718, 8449, 8700, 8269, 8746, 847, 781 of 1456 triangles, 6348, 7894, |
| 8334 | | 54, 8773, 8618, 7713, 227, 6420, 6567, 6703, 82, 1040, 8698, 266, 8459, 8697, |
| 8335 | | 8563, 8560, 8696, 8757, 1514 of 2232 triangles, 8047, 264, 240, 8270, 199, |
| 8336 | | 8772, 1830 of 1960 triangles, 8792, 247, 8433, 621, 677, 8695, 202, 313, 8756, |
| 8337 | | 8434, 289, 6824, 8441, 8440, 263, 417, 8404, 498, 537, 354, 7823, 8793, 18, |
| 8338 | | 579, 737, 968 of 992 triangles, 385, 6099, 338, 326, 8699, 312, 418, 8060, 442 |
| 8339 | | of 1148 triangles, 8554, 782, 698 of 832 triangles, 111, 297, 201, 8573, 314, |
| 8340 | | 59, 8557, 965 of 1104 triangles, 8333, 8791, 419, 119, 200, 6809, 139, 8442, |
| 8341 | | 293, 98, 242, 122, 342, 6846, 379, 554, 238, 239, 594, 176, 228, 53, 756, 437 |
| 8342 | | of 588 triangles, 8755, 1169, 523 of 592 triangles, 77, 106, 378, 27, 146, |
| 8343 | | 7457, 299 of 656 triangles, 7209, 399 of 632 triangles, 8109, 779, 365, 7210, |
| 8344 | | 268, 48, 785, 790, 6817, 30, 473, 279, 580, 8726, 567, 1167, 50, 1101, 128 of |
| 8345 | | 264 triangles, 273, 799, 77 of 216 triangles, 76 |
| 8346 | | |
| 8347 | | > select add #2.95 |
| 8348 | | |
| 8349 | | 544 models selected |
| 8350 | | |
| 8351 | | > select add #2.173 |
| 8352 | | |
| 8353 | | 545 models selected |
| 8354 | | |
| 8355 | | > select add #2.43 |
| 8356 | | |
| 8357 | | 546 models selected |
| 8358 | | |
| 8359 | | > select add #2.565 |
| 8360 | | |
| 8361 | | 547 models selected |
| 8362 | | |
| 8363 | | > select add #2.126 |
| 8364 | | |
| 8365 | | 548 models selected |
| 8366 | | |
| 8367 | | > select add #2.18 |
| 8368 | | |
| 8369 | | 549 models selected |
| 8370 | | |
| 8371 | | > select add #2.480 |
| 8372 | | |
| 8373 | | 550 models selected |
| 8374 | | |
| 8375 | | > select add #2.387 |
| 8376 | | |
| 8377 | | 551 models selected |
| 8378 | | |
| 8379 | | > select add #2.396 |
| 8380 | | |
| 8381 | | 552 models selected |
| 8382 | | |
| 8383 | | > select add #2.454 |
| 8384 | | |
| 8385 | | 553 models selected |
| 8386 | | |
| 8387 | | > select add #2.310 |
| 8388 | | |
| 8389 | | 554 models selected |
| 8390 | | |
| 8391 | | > select add #2.117 |
| 8392 | | |
| 8393 | | 555 models selected |
| 8394 | | |
| 8395 | | > select add #2.6 |
| 8396 | | |
| 8397 | | 556 models selected |
| 8398 | | |
| 8399 | | > select add #2.328 |
| 8400 | | |
| 8401 | | 557 models selected |
| 8402 | | |
| 8403 | | > select add #2.385 |
| 8404 | | |
| 8405 | | 558 models selected |
| 8406 | | |
| 8407 | | > select add #2.434 |
| 8408 | | |
| 8409 | | 559 models selected |
| 8410 | | |
| 8411 | | > select add #2.400 |
| 8412 | | |
| 8413 | | 560 models selected |
| 8414 | | |
| 8415 | | > select add #2.403 |
| 8416 | | |
| 8417 | | 561 models selected |
| 8418 | | |
| 8419 | | > select add #2.464 |
| 8420 | | |
| 8421 | | 562 models selected |
| 8422 | | |
| 8423 | | > select add #2.337 |
| 8424 | | |
| 8425 | | 563 models selected |
| 8426 | | |
| 8427 | | > select add #2.450 |
| 8428 | | |
| 8429 | | 564 models selected |
| 8430 | | |
| 8431 | | > select add #2.77 |
| 8432 | | |
| 8433 | | 565 models selected |
| 8434 | | |
| 8435 | | > select add #2.75 |
| 8436 | | |
| 8437 | | 566 models selected |
| 8438 | | |
| 8439 | | > select add #2.213 |
| 8440 | | |
| 8441 | | 567 models selected |
| 8442 | | |
| 8443 | | > select add #2.221 |
| 8444 | | |
| 8445 | | 568 models selected |
| 8446 | | |
| 8447 | | > select add #2.234 |
| 8448 | | |
| 8449 | | 569 models selected |
| 8450 | | |
| 8451 | | > select subtract #2.18 |
| 8452 | | |
| 8453 | | 568 models selected |
| 8454 | | |
| 8455 | | > select add #2.18 |
| 8456 | | |
| 8457 | | 569 models selected |
| 8458 | | |
| 8459 | | > select subtract #2.126 |
| 8460 | | |
| 8461 | | 568 models selected |
| 8462 | | |
| 8463 | | > select add #2.65 |
| 8464 | | |
| 8465 | | 569 models selected |
| 8466 | | |
| 8467 | | > select add #2.126 |
| 8468 | | |
| 8469 | | 570 models selected |
| 8470 | | |
| 8471 | | > select subtract #2.43 |
| 8472 | | |
| 8473 | | 569 models selected |
| 8474 | | |
| 8475 | | > select add #2.61 |
| 8476 | | |
| 8477 | | 570 models selected |
| 8478 | | |
| 8479 | | > select subtract #2.95 |
| 8480 | | |
| 8481 | | 569 models selected |
| 8482 | | |
| 8483 | | > select add #2.95 |
| 8484 | | |
| 8485 | | 570 models selected |
| 8486 | | |
| 8487 | | > select add #2.161 |
| 8488 | | |
| 8489 | | 571 models selected |
| 8490 | | |
| 8491 | | > select add #2.38 |
| 8492 | | |
| 8493 | | 572 models selected |
| 8494 | | |
| 8495 | | > select add #2.22 |
| 8496 | | |
| 8497 | | 573 models selected |
| 8498 | | |
| 8499 | | > select add #2.339 |
| 8500 | | |
| 8501 | | 574 models selected |
| 8502 | | |
| 8503 | | > select add #2.349 |
| 8504 | | |
| 8505 | | 575 models selected |
| 8506 | | |
| 8507 | | > select add #2.545 |
| 8508 | | |
| 8509 | | 576 models selected |
| 8510 | | |
| 8511 | | > select add #2.535 |
| 8512 | | |
| 8513 | | 577 models selected |
| 8514 | | |
| 8515 | | > select add #2.344 |
| 8516 | | |
| 8517 | | 578 models selected |
| 8518 | | |
| 8519 | | > select add #2.361 |
| 8520 | | |
| 8521 | | 579 models selected |
| 8522 | | |
| 8523 | | > select add #2.23 |
| 8524 | | |
| 8525 | | 580 models selected |
| 8526 | | |
| 8527 | | > select add #2.382 |
| 8528 | | |
| 8529 | | 581 models selected |
| 8530 | | |
| 8531 | | > select add #2.86 |
| 8532 | | |
| 8533 | | 582 models selected |
| 8534 | | |
| 8535 | | > select add #2.39 |
| 8536 | | |
| 8537 | | 583 models selected |
| 8538 | | Drag select of 8659, 82 of 18068 triangles, 8604, 6 of 12792 triangles, 8474, |
| 8539 | | 69 of 9604 triangles, 7680, 46 of 4496 triangles, 3036, 41 of 3268 triangles |
| 8540 | | |
| 8541 | | > select add #2.10 |
| 8542 | | |
| 8543 | | 589 models selected |
| 8544 | | |
| 8545 | | > select add #2.460 |
| 8546 | | |
| 8547 | | 590 models selected |
| 8548 | | Drag select of 8512, 189 of 23920 triangles, 8675, 534 of 17068 triangles, |
| 8549 | | 8575, 532 of 13132 triangles, 8522, 6419 of 7876 triangles, 8779, 125 of 10904 |
| 8550 | | triangles, 8396, 197 of 9736 triangles, 8582, 865 of 8368 triangles, 8034, 296 |
| 8551 | | of 10924 triangles, 8535, 380 of 10464 triangles, 8736, 1762 of 10760 |
| 8552 | | triangles, 8572, 229 of 8488 triangles, 8796, 83 of 8092 triangles, 8137, 10 |
| 8553 | | of 7124 triangles, 7103, 927 of 7712 triangles, 8399, 326 of 6276 triangles, |
| 8554 | | 8051, 3524 of 3968 triangles, 7961, 1060 of 3256 triangles, 7255, 2368 of 3080 |
| 8555 | | triangles, 8754, 3639 of 4580 triangles, 989, 1904 of 2440 triangles, 1055, |
| 8556 | | 943 of 2116 triangles, 8646, 7241, 931 of 1628 triangles, 1034, 7909, 8402, |
| 8557 | | 1202 of 1924 triangles, 1092, 706 of 1092 triangles, 938, 8410, 628 of 1284 |
| 8558 | | triangles, 1058, 608 of 1000 triangles, 1062, 697 of 904 triangles, 7280, 318 |
| 8559 | | of 1032 triangles, 1228, 14 of 560 triangles, 836, 7137, 148 of 532 triangles, |
| 8560 | | 807 |
| 8561 | | Grouped 624 regions |
| 8562 | | |
| 8563 | | > select clear |
| 8564 | | |
| 8565 | | > select #2.225 |
| 8566 | | |
| 8567 | | 1 model selected |
| 8568 | | |
| 8569 | | > select add #2.275 |
| 8570 | | |
| 8571 | | 2 models selected |
| 8572 | | |
| 8573 | | > select add #2.422 |
| 8574 | | |
| 8575 | | 3 models selected |
| 8576 | | |
| 8577 | | > select add #2.232 |
| 8578 | | |
| 8579 | | 4 models selected |
| 8580 | | Grouped 4 regions |
| 8581 | | |
| 8582 | | > select add #2.190 |
| 8583 | | |
| 8584 | | 2 models selected |
| 8585 | | |
| 8586 | | > select add #2.227 |
| 8587 | | |
| 8588 | | 3 models selected |
| 8589 | | |
| 8590 | | > select subtract #2.227 |
| 8591 | | |
| 8592 | | 2 models selected |
| 8593 | | |
| 8594 | | > select add #2.227 |
| 8595 | | |
| 8596 | | 3 models selected |
| 8597 | | |
| 8598 | | > select add #2.266 |
| 8599 | | |
| 8600 | | 4 models selected |
| 8601 | | |
| 8602 | | > select add #2.258 |
| 8603 | | |
| 8604 | | 5 models selected |
| 8605 | | |
| 8606 | | > select add #2.283 |
| 8607 | | |
| 8608 | | 6 models selected |
| 8609 | | |
| 8610 | | > select add #2.290 |
| 8611 | | |
| 8612 | | 7 models selected |
| 8613 | | |
| 8614 | | > select add #2.432 |
| 8615 | | |
| 8616 | | 8 models selected |
| 8617 | | |
| 8618 | | > select add #2.249 |
| 8619 | | |
| 8620 | | 9 models selected |
| 8621 | | |
| 8622 | | > select add #2.175 |
| 8623 | | |
| 8624 | | 10 models selected |
| 8625 | | |
| 8626 | | > select add #2.254 |
| 8627 | | |
| 8628 | | 11 models selected |
| 8629 | | |
| 8630 | | > select add #2.343 |
| 8631 | | |
| 8632 | | 12 models selected |
| 8633 | | |
| 8634 | | > select add #2.233 |
| 8635 | | |
| 8636 | | 13 models selected |
| 8637 | | |
| 8638 | | > select add #2.136 |
| 8639 | | |
| 8640 | | 14 models selected |
| 8641 | | |
| 8642 | | > select add #2.220 |
| 8643 | | |
| 8644 | | 15 models selected |
| 8645 | | |
| 8646 | | > select add #2.427 |
| 8647 | | |
| 8648 | | 16 models selected |
| 8649 | | |
| 8650 | | > select add #2.500 |
| 8651 | | |
| 8652 | | 17 models selected |
| 8653 | | |
| 8654 | | > select add #2.241 |
| 8655 | | |
| 8656 | | 18 models selected |
| 8657 | | Grouped 18 regions |
| 8658 | | |
| 8659 | | > select add #2.531 |
| 8660 | | |
| 8661 | | 2 models selected |
| 8662 | | Grouped 2 regions |
| 8663 | | |
| 8664 | | > select add #2.271 |
| 8665 | | |
| 8666 | | 2 models selected |
| 8667 | | Grouped 2 regions |
| 8668 | | |
| 8669 | | > select clear |
| 8670 | | |
| 8671 | | > select #2.2 |
| 8672 | | |
| 8673 | | 1 model selected |
| 8674 | | Opened Rev-Hp-PflB_imasked as #3, grid size 220,220,220, pixel 4.3, shown at |
| 8675 | | step 1, values float32 |
| 8676 | | Segmenting Rev-Hp-PflB_imasked, density threshold 0.383927 |
| 8677 | | Showing 23 region surfaces |
| 8678 | | 103 watershed regions, grouped to 23 regions |
| 8679 | | Showing Rev-Hp-PflB_imasked.seg - 23 regions, 23 surfaces |
| 8680 | | |
| 8681 | | > open /Volumes/Backup-95/Chimera-2023/PflB-PflA-project/Start- |
| 8682 | | > from_June2024/PDB- |
| 8683 | | > files/Hp_motElikeproteindimer_ed02a_unrelaxed_rank_004_alphafold2_multimer_v3_model_1_seed_000.pdb |
| 8684 | | |
| 8685 | | Chain information for |
| 8686 | | Hp_motElikeproteindimer_ed02a_unrelaxed_rank_004_alphafold2_multimer_v3_model_1_seed_000.pdb |
| 8687 | | #4 |
| 8688 | | --- |
| 8689 | | Chain | Description |
| 8690 | | A B | No description available |
| 8691 | | |
| 8692 | | |
| 8693 | | > select add #4 |
| 8694 | | |
| 8695 | | 3420 atoms, 3458 bonds, 430 residues, 1 model selected |
| 8696 | | |
| 8697 | | > select subtract #4 |
| 8698 | | |
| 8699 | | Nothing selected |
| 8700 | | |
| 8701 | | > select add #4 |
| 8702 | | |
| 8703 | | 3420 atoms, 3458 bonds, 430 residues, 1 model selected |
| 8704 | | |
| 8705 | | > view matrix models #4,1,0,0,-18.183,0,1,0,119.32,0,0,1,25.036 |
| 8706 | | |
| 8707 | | > view matrix models #4,1,0,0,-2.2723,0,1,0,128.67,0,0,1,-24.184 |
| 8708 | | |
| 8709 | | > view matrix models #4,1,0,0,1.0942,0,1,0,124.99,0,0,1,-24.281 |
| 8710 | | |
| 8711 | | > view matrix models #4,1,0,0,-16.19,0,1,0,121.95,0,0,1,-57.422 |
| 8712 | | |
| 8713 | | > view matrix models #4,1,0,0,-13.434,0,1,0,120.81,0,0,1,-57.512 |
| 8714 | | |
| 8715 | | > ui mousemode right "rotate selected models" |
| 8716 | | |
| 8717 | | > view matrix models |
| 8718 | | > #4,0.84172,-0.30814,0.44335,-8.8352,0.031429,0.84772,0.52951,120.21,-0.539,-0.43177,0.72323,-42.743 |
| 8719 | | |
| 8720 | | > ui mousemode right "translate selected models" |
| 8721 | | |
| 8722 | | > view matrix models |
| 8723 | | > #4,0.84172,-0.30814,0.44335,-16.152,0.031429,0.84772,0.52951,122.98,-0.539,-0.43177,0.72323,-35.613 |
| 8724 | | |
| 8725 | | > select clear |
| 8726 | | |
| 8727 | | > select #2.7 |
| 8728 | | |
| 8729 | | 1 model selected |
| 8730 | | |
| 8731 | | > select add #2.19 |
| 8732 | | |
| 8733 | | 2 models selected |
| 8734 | | |
| 8735 | | > select add #2.16 |
| 8736 | | |
| 8737 | | 3 models selected |
| 8738 | | |
| 8739 | | > select add #2.21 |
| 8740 | | |
| 8741 | | 4 models selected |
| 8742 | | |
| 8743 | | > select add #2.20 |
| 8744 | | |
| 8745 | | 5 models selected |
| 8746 | | |
| 8747 | | > select add #2.18 |
| 8748 | | |
| 8749 | | 6 models selected |
| 8750 | | |
| 8751 | | > select add #2.15 |
| 8752 | | |
| 8753 | | 7 models selected |
| 8754 | | |
| 8755 | | > select add #2.17 |
| 8756 | | |
| 8757 | | 8 models selected |
| 8758 | | Grouped 8 regions |
| 8759 | | |
| 8760 | | > select #2.3 |
| 8761 | | |
| 8762 | | 1 model selected |
| 8763 | | Ungrouped to 3 regions |
| 8764 | | Ungrouped to 5 regions |
| 8765 | | Ungrouped to 0 regions |
| 8766 | | |
| 8767 | | > select #2.3 |
| 8768 | | |
| 8769 | | 1 model selected |
| 8770 | | |
| 8771 | | > select add #2.20 |
| 8772 | | |
| 8773 | | 2 models selected |
| 8774 | | |
| 8775 | | > select add #2.18 |
| 8776 | | |
| 8777 | | 3 models selected |
| 8778 | | Grouped 3 regions |
| 8779 | | |
| 8780 | | > select add #2.7 |
| 8781 | | |
| 8782 | | 2 models selected |
| 8783 | | Grouped 2 regions |
| 8784 | | |
| 8785 | | > select clear |
| 8786 | | |
| 8787 | | > select #2.8 |
| 8788 | | |
| 8789 | | 1 model selected |
| 8790 | | Ungrouped to 3 regions |
| 8791 | | Ungrouped to 6 regions |
| 8792 | | Ungrouped to 0 regions |
| 8793 | | |
| 8794 | | > select #2.16 |
| 8795 | | |
| 8796 | | 1 model selected |
| 8797 | | |
| 8798 | | > select add #2.8 |
| 8799 | | |
| 8800 | | 2 models selected |
| 8801 | | Grouped 2 regions |
| 8802 | | |
| 8803 | | > select add #2.3 |
| 8804 | | |
| 8805 | | 2 models selected |
| 8806 | | Grouped 2 regions |
| 8807 | | |
| 8808 | | > select clear |
| 8809 | | |
| 8810 | | > select #2.6 |
| 8811 | | |
| 8812 | | 1 model selected |
| 8813 | | Ungrouped to 4 regions |
| 8814 | | Ungrouped to 2 regions |
| 8815 | | |
| 8816 | | > select #2.17 |
| 8817 | | |
| 8818 | | 1 model selected |
| 8819 | | |
| 8820 | | > select add #2.16 |
| 8821 | | |
| 8822 | | 2 models selected |
| 8823 | | |
| 8824 | | > select add #2.7 |
| 8825 | | |
| 8826 | | 3 models selected |
| 8827 | | Grouped 3 regions |
| 8828 | | |
| 8829 | | > select #2.27 |
| 8830 | | |
| 8831 | | 1 model selected |
| 8832 | | |
| 8833 | | > hide #!3 models |
| 8834 | | |
| 8835 | | > select clear |
| 8836 | | |
| 8837 | | > select #2.7 |
| 8838 | | |
| 8839 | | 1 model selected |
| 8840 | | |
| 8841 | | > select add #2.3 |
| 8842 | | |
| 8843 | | 2 models selected |
| 8844 | | Grouped 2 regions |
| 8845 | | |
| 8846 | | > select #2.10 |
| 8847 | | |
| 8848 | | 1 model selected |
| 8849 | | Ungrouped to 3 regions |
| 8850 | | |
| 8851 | | > select clear |
| 8852 | | |
| 8853 | | > select #2.7 |
| 8854 | | |
| 8855 | | 1 model selected |
| 8856 | | |
| 8857 | | > select add #2.16 |
| 8858 | | |
| 8859 | | 2 models selected |
| 8860 | | |
| 8861 | | > select add #2.3 |
| 8862 | | |
| 8863 | | 3 models selected |
| 8864 | | Grouped 3 regions |
| 8865 | | |
| 8866 | | > select #2.5 |
| 8867 | | |
| 8868 | | 1 model selected |
| 8869 | | Ungrouped to 4 regions |
| 8870 | | |
| 8871 | | > select clear |
| 8872 | | |
| 8873 | | > select #2.17 |
| 8874 | | |
| 8875 | | 1 model selected |
| 8876 | | |
| 8877 | | > select add #2.16 |
| 8878 | | |
| 8879 | | 2 models selected |
| 8880 | | |
| 8881 | | > select add #2.7 |
| 8882 | | |
| 8883 | | 3 models selected |
| 8884 | | Grouped 3 regions |
| 8885 | | |
| 8886 | | > select add #2.3 |
| 8887 | | |
| 8888 | | 2 models selected |
| 8889 | | Grouped 2 regions |
| 8890 | | |
| 8891 | | > select #2.9 |
| 8892 | | |
| 8893 | | 1 model selected |
| 8894 | | |
| 8895 | | > select #2.1 |
| 8896 | | |
| 8897 | | 1 model selected |
| 8898 | | Ungrouped to 3 regions |
| 8899 | | [Repeated 1 time(s)]Ungrouped to 5 regions |
| 8900 | | Ungrouped to 0 regions |
| 8901 | | |
| 8902 | | > select #2.3 |
| 8903 | | |
| 8904 | | 1 model selected |
| 8905 | | |
| 8906 | | > select add #2.16 |
| 8907 | | |
| 8908 | | 2 models selected |
| 8909 | | |
| 8910 | | > select add #2.31 |
| 8911 | | |
| 8912 | | 3 models selected |
| 8913 | | |
| 8914 | | > select add #2.32 |
| 8915 | | |
| 8916 | | 4 models selected |
| 8917 | | |
| 8918 | | > select add #2.1 |
| 8919 | | |
| 8920 | | 5 models selected |
| 8921 | | Grouped 5 regions |
| 8922 | | |
| 8923 | | > select clear |
| 8924 | | |
| 8925 | | > select #2.9 |
| 8926 | | |
| 8927 | | 1 model selected |
| 8928 | | Ungrouped to 2 regions |
| 8929 | | |
| 8930 | | > select clear |
| 8931 | | |
| 8932 | | > select #2.3 |
| 8933 | | |
| 8934 | | 1 model selected |
| 8935 | | |
| 8936 | | > select add #2.1 |
| 8937 | | |
| 8938 | | 2 models selected |
| 8939 | | Grouped 2 regions |
| 8940 | | |
| 8941 | | > select #2.12 |
| 8942 | | |
| 8943 | | 1 model selected |
| 8944 | | Ungrouped to 2 regions |
| 8945 | | |
| 8946 | | > select clear |
| 8947 | | |
| 8948 | | > select #2.1 |
| 8949 | | |
| 8950 | | 1 model selected |
| 8951 | | |
| 8952 | | > select add #2.9 |
| 8953 | | |
| 8954 | | 2 models selected |
| 8955 | | Grouped 2 regions |
| 8956 | | |
| 8957 | | > select #2.4 |
| 8958 | | |
| 8959 | | 1 model selected |
| 8960 | | |
| 8961 | | > select clear |
| 8962 | | |
| 8963 | | > select #2.4 |
| 8964 | | |
| 8965 | | 1 model selected |
| 8966 | | Ungrouped to 2 regions |
| 8967 | | Ungrouped to 4 regions |
| 8968 | | |
| 8969 | | > select clear |
| 8970 | | |
| 8971 | | > select #2.31 |
| 8972 | | |
| 8973 | | 1 model selected |
| 8974 | | |
| 8975 | | > select add #2.32 |
| 8976 | | |
| 8977 | | 2 models selected |
| 8978 | | |
| 8979 | | > select add #2.4 |
| 8980 | | |
| 8981 | | 3 models selected |
| 8982 | | Grouped 3 regions |
| 8983 | | |
| 8984 | | > select #2.11 |
| 8985 | | |
| 8986 | | 1 model selected |
| 8987 | | Ungrouped to 2 regions |
| 8988 | | [Repeated 1 time(s)] |
| 8989 | | |
| 8990 | | > select clear |
| 8991 | | |
| 8992 | | > select #2.1 |
| 8993 | | |
| 8994 | | 1 model selected |
| 8995 | | |
| 8996 | | > select add #2.31 |
| 8997 | | |
| 8998 | | 2 models selected |
| 8999 | | |
| 9000 | | > select add #2.11 |
| 9001 | | |
| 9002 | | 3 models selected |
| 9003 | | Grouped 3 regions |
| 9004 | | |
| 9005 | | > select clear |
| 9006 | | |
| 9007 | | > select #2.9 |
| 9008 | | |
| 9009 | | 1 model selected |
| 9010 | | |
| 9011 | | > select #2.2 |
| 9012 | | |
| 9013 | | 1 model selected |
| 9014 | | Ungrouped to 2 regions |
| 9015 | | Ungrouped to 4 regions |
| 9016 | | Ungrouped to 2 regions |
| 9017 | | |
| 9018 | | > select clear |
| 9019 | | |
| 9020 | | > select #2.2 |
| 9021 | | |
| 9022 | | 1 model selected |
| 9023 | | |
| 9024 | | > select add #2.33 |
| 9025 | | |
| 9026 | | 2 models selected |
| 9027 | | |
| 9028 | | > select add #2.1 |
| 9029 | | |
| 9030 | | 3 models selected |
| 9031 | | Grouped 3 regions |
| 9032 | | |
| 9033 | | > select #2.13 |
| 9034 | | |
| 9035 | | 1 model selected |
| 9036 | | Ungrouped to 2 regions |
| 9037 | | Ungrouped to 0 regions |
| 9038 | | |
| 9039 | | > select #2.32 |
| 9040 | | |
| 9041 | | 1 model selected |
| 9042 | | |
| 9043 | | > select add #2.2 |
| 9044 | | |
| 9045 | | 2 models selected |
| 9046 | | |
| 9047 | | > select add #2.1 |
| 9048 | | |
| 9049 | | 3 models selected |
| 9050 | | Grouped 3 regions |
| 9051 | | |
| 9052 | | > select clear |
| 9053 | | |
| 9054 | | > select #2.14 |
| 9055 | | |
| 9056 | | 1 model selected |
| 9057 | | Ungrouped to 2 regions |
| 9058 | | |
| 9059 | | > select clear |
| 9060 | | |
| 9061 | | > select #2.13 |
| 9062 | | |
| 9063 | | 1 model selected |
| 9064 | | |
| 9065 | | > select add #2.1 |
| 9066 | | |
| 9067 | | 2 models selected |
| 9068 | | |
| 9069 | | > select clear |
| 9070 | | |
| 9071 | | > select #2.13 |
| 9072 | | |
| 9073 | | 1 model selected |
| 9074 | | Ungrouped to 2 regions |
| 9075 | | Ungrouped to 3 regions |
| 9076 | | |
| 9077 | | > select clear |
| 9078 | | |
| 9079 | | > select #2.13 |
| 9080 | | |
| 9081 | | 1 model selected |
| 9082 | | |
| 9083 | | > select add #2.1 |
| 9084 | | |
| 9085 | | 2 models selected |
| 9086 | | Grouped 2 regions |
| 9087 | | |
| 9088 | | > select clear |
| 9089 | | |
| 9090 | | > select #2.4 |
| 9091 | | |
| 9092 | | 1 model selected |
| 9093 | | |
| 9094 | | > select add #2.1 |
| 9095 | | |
| 9096 | | 2 models selected |
| 9097 | | Grouped 2 regions |
| 9098 | | Opened Rev-Hp-PflB_imasked_imasked as #5, grid size 220,220,220, pixel 4.3, |
| 9099 | | shown at step 1, values float32 |
| 9100 | | Segmenting Rev-Hp-PflB_imasked_imasked, density threshold 0.383927 |
| 9101 | | Showing 21 region surfaces |
| 9102 | | 71 watershed regions, grouped to 21 regions |
| 9103 | | Showing Rev-Hp-PflB_imasked_imasked.seg - 21 regions, 21 surfaces |
| 9104 | | |
| 9105 | | > select #2.2 |
| 9106 | | |
| 9107 | | 1 model selected |
| 9108 | | Ungrouped to 2 regions |
| 9109 | | Ungrouped to 0 regions |
| 9110 | | |
| 9111 | | > hide #4 models |
| 9112 | | |
| 9113 | | > hide #!2 models |
| 9114 | | |
| 9115 | | > show #!2 models |
| 9116 | | |
| 9117 | | > save /Volumes/Backup-95/Chimera-2023/PflB-PflA-project/Start- |
| 9118 | | > from_June2024/For-FlgY-model_June2024/Segments/FlgY-with-joints.mrc models |
| 9119 | | > #5 |
| 9120 | | |
| 9121 | | > select #2.18 |
| 9122 | | |
| 9123 | | 1 model selected |
| 9124 | | |
| 9125 | | > select add #2.13 |
| 9126 | | |
| 9127 | | 2 models selected |
| 9128 | | |
| 9129 | | > select add #2.8 |
| 9130 | | |
| 9131 | | 3 models selected |
| 9132 | | |
| 9133 | | > select add #2.9 |
| 9134 | | |
| 9135 | | 4 models selected |
| 9136 | | |
| 9137 | | > select add #2.11 |
| 9138 | | |
| 9139 | | 5 models selected |
| 9140 | | |
| 9141 | | > select add #2.12 |
| 9142 | | |
| 9143 | | 6 models selected |
| 9144 | | |
| 9145 | | > select add #2.6 |
| 9146 | | |
| 9147 | | 7 models selected |
| 9148 | | |
| 9149 | | > select add #2.17 |
| 9150 | | |
| 9151 | | 8 models selected |
| 9152 | | |
| 9153 | | > select add #2.15 |
| 9154 | | |
| 9155 | | 9 models selected |
| 9156 | | |
| 9157 | | > select add #2.23 |
| 9158 | | |
| 9159 | | 10 models selected |
| 9160 | | |
| 9161 | | > select add #2.22 |
| 9162 | | |
| 9163 | | 11 models selected |
| 9164 | | |
| 9165 | | > select add #2.16 |
| 9166 | | |
| 9167 | | 12 models selected |
| 9168 | | |
| 9169 | | > select add #2.10 |
| 9170 | | |
| 9171 | | 13 models selected |
| 9172 | | |
| 9173 | | > select add #2.5 |
| 9174 | | |
| 9175 | | 14 models selected |
| 9176 | | Ungrouped to 24 regions |
| 9177 | | Ungrouped to 18 regions |
| 9178 | | Ungrouped to 0 regions |
| 9179 | | |
| 9180 | | > select #2.24 |
| 9181 | | |
| 9182 | | 1 model selected |
| 9183 | | |
| 9184 | | > select add #2.14 |
| 9185 | | |
| 9186 | | 2 models selected |
| 9187 | | |
| 9188 | | > select add #2.33 |
| 9189 | | |
| 9190 | | 3 models selected |
| 9191 | | |
| 9192 | | > select add #2.3 |
| 9193 | | |
| 9194 | | 4 models selected |
| 9195 | | |
| 9196 | | > select add #2.7 |
| 9197 | | |
| 9198 | | 5 models selected |
| 9199 | | |
| 9200 | | > select add #2.1 |
| 9201 | | |
| 9202 | | 6 models selected |
| 9203 | | |
| 9204 | | > select add #2.19 |
| 9205 | | |
| 9206 | | 7 models selected |
| 9207 | | |
| 9208 | | > select add #2.4 |
| 9209 | | |
| 9210 | | 8 models selected |
| 9211 | | |
| 9212 | | > select add #2.21 |
| 9213 | | |
| 9214 | | 9 models selected |
| 9215 | | |
| 9216 | | > select add #2.20 |
| 9217 | | |
| 9218 | | 10 models selected |
| 9219 | | |
| 9220 | | > hide #!5 models |
| 9221 | | |
| 9222 | | > select subtract #2.12 |
| 9223 | | |
| 9224 | | 34 models selected |
| 9225 | | |
| 9226 | | > select subtract #2.45 |
| 9227 | | |
| 9228 | | 33 models selected |
| 9229 | | |
| 9230 | | > select subtract #2.46 |
| 9231 | | |
| 9232 | | 32 models selected |
| 9233 | | |
| 9234 | | > select clear |
| 9235 | | |
| 9236 | | > select add #2.12 |
| 9237 | | |
| 9238 | | 1 model selected |
| 9239 | | |
| 9240 | | > select add #2.45 |
| 9241 | | |
| 9242 | | 2 models selected |
| 9243 | | |
| 9244 | | > select add #2.46 |
| 9245 | | |
| 9246 | | 3 models selected |
| 9247 | | |
| 9248 | | > select add #2.21 |
| 9249 | | |
| 9250 | | 4 models selected |
| 9251 | | |
| 9252 | | > select add #2.20 |
| 9253 | | |
| 9254 | | 5 models selected |
| 9255 | | |
| 9256 | | > select add #2.14 |
| 9257 | | |
| 9258 | | 6 models selected |
| 9259 | | |
| 9260 | | > select add #2.24 |
| 9261 | | |
| 9262 | | 7 models selected |
| 9263 | | |
| 9264 | | > select add #2.48 |
| 9265 | | |
| 9266 | | 8 models selected |
| 9267 | | |
| 9268 | | > select add #2.18 |
| 9269 | | |
| 9270 | | 9 models selected |
| 9271 | | Grouped 9 regions |
| 9272 | | |
| 9273 | | > select add #2.52 |
| 9274 | | |
| 9275 | | 2 models selected |
| 9276 | | |
| 9277 | | > select add #2.8 |
| 9278 | | |
| 9279 | | 3 models selected |
| 9280 | | |
| 9281 | | > select add #2.33 |
| 9282 | | |
| 9283 | | 4 models selected |
| 9284 | | |
| 9285 | | > select add #2.3 |
| 9286 | | |
| 9287 | | 5 models selected |
| 9288 | | |
| 9289 | | > select add #2.30 |
| 9290 | | |
| 9291 | | 6 models selected |
| 9292 | | |
| 9293 | | > select add #2.7 |
| 9294 | | |
| 9295 | | 7 models selected |
| 9296 | | |
| 9297 | | > select add #2.1 |
| 9298 | | |
| 9299 | | 8 models selected |
| 9300 | | |
| 9301 | | > select add #2.19 |
| 9302 | | |
| 9303 | | 9 models selected |
| 9304 | | |
| 9305 | | > select add #2.4 |
| 9306 | | |
| 9307 | | 10 models selected |
| 9308 | | Grouped 10 regions |
| 9309 | | |
| 9310 | | > select add #2.15 |
| 9311 | | |
| 9312 | | 2 models selected |
| 9313 | | |
| 9314 | | > select clear |
| 9315 | | |
| 9316 | | > select #2.26 |
| 9317 | | |
| 9318 | | 1 model selected |
| 9319 | | |
| 9320 | | > select add #2.11 |
| 9321 | | |
| 9322 | | 2 models selected |
| 9323 | | Ungrouped to 0 regions |
| 9324 | | Ungrouped to 10 regions |
| 9325 | | |
| 9326 | | > save /Volumes/Backup-95/Chimera-2023/PflB-PflA-project/Start- |
| 9327 | | > from_June2024/For-FlgY- |
| 9328 | | > model_June2024/Segments/Segmentation_FlgY_June2024.cxs includeMaps true |
| 9329 | | |
| 9330 | | > close session |
| 9331 | | |
| 9332 | | > open /Volumes/Backup-95/Chimera-2023/PflB-PflA-project/Start- |
| 9333 | | > from_June2024/Sep11_2023/PflA-2.1A-230911.mrc |
| 9334 | | |
| 9335 | | Opened PflA-2.1A-230911.mrc as #1, grid size 240,240,240, pixel 2.1, shown at |
| 9336 | | level 4.29, step 1, values float32 |
| 9337 | | |
| 9338 | | > volume #1 level 0.04668 |
| 9339 | | |
| 9340 | | > ui tool show "Segment Map" |
| 9341 | | |
| 9342 | | Segmenting PflA-2.1A-230911.mrc, density threshold 0.046682 |
| 9343 | | Showing 295 region surfaces |
| 9344 | | 3353 watershed regions, grouped to 295 regions |
| 9345 | | Showing PflA-2.1A-230911.seg - 295 regions, 295 surfaces |
| 9346 | | Drag select of 4912, 2073 of 27676 triangles, 4895, 1858 of 23484 triangles, |
| 9347 | | 4753, 17818 of 21324 triangles, 4925, 16701 of 20336 triangles, 4688, 13072 of |
| 9348 | | 19524 triangles, 4681, 62 of 20760 triangles, 4893, 3877 of 20004 triangles, |
| 9349 | | 4965, 5486 of 20040 triangles, 4959, 8950 of 19788 triangles, 4921, 11627 of |
| 9350 | | 18268 triangles, 4701, 11608 of 18776 triangles, 4958, 7623 of 19080 |
| 9351 | | triangles, 4944, 12405 of 16572 triangles, 4930, 8286 of 19480 triangles, |
| 9352 | | 4687, 10865 of 18496 triangles, 4927, 9131 of 16128 triangles, 4899, 15393 of |
| 9353 | | 19516 triangles, 4905, 10808 of 16732 triangles, 4938, 9705 of 17880 |
| 9354 | | triangles, 4945, 5453 of 18612 triangles, 4892, 15229 of 17068 triangles, |
| 9355 | | 4937, 12209 of 15616 triangles, 4948, 9712 of 15808 triangles, 4828, 9026 of |
| 9356 | | 16436 triangles, 4917, 7074 of 16712 triangles, 4946, 5740 of 15528 triangles, |
| 9357 | | 4749, 6345 of 14628 triangles, 4953, 7293 of 14652 triangles, 4924, 5379 of |
| 9358 | | 14820 triangles, 4814, 1274 of 15692 triangles, 4672, 7717 of 14464 triangles, |
| 9359 | | 4943, 9823 of 15676 triangles, 4926, 7517 of 14184 triangles, 4790, 5831 of |
| 9360 | | 13076 triangles, 4949, 5754 of 13764 triangles, 4779, 8226 of 13128 triangles, |
| 9361 | | 4955, 1711 of 13408 triangles, 4878, 2869 of 14384 triangles, 4909, 4933, 7556 |
| 9362 | | of 12836 triangles, 4939, 4919, 3987 of 13164 triangles, 4931, 9538 of 13064 |
| 9363 | | triangles, 4787, 5468 of 13300 triangles, 4847, 8107 of 13212 triangles, 4774, |
| 9364 | | 8059 of 12652 triangles, 4900, 4897, 718 of 14044 triangles, 4836, 4969, 196 |
| 9365 | | of 11808 triangles, 4720, 6164 of 12816 triangles, 4706, 1125 of 12332 |
| 9366 | | triangles, 4752, 8297 of 13132 triangles, 4918, 4384 of 12916 triangles, 4960, |
| 9367 | | 3394 of 11432 triangles, 4668, 6980 of 12228 triangles, 4791, 7757 of 11564 |
| 9368 | | triangles, 4879, 5193 of 11416 triangles, 4766, 3336 of 11660 triangles, 4964, |
| 9369 | | 832 of 12532 triangles, 4730, 4865, 5181 of 10644 triangles, 4902, 592 of |
| 9370 | | 10200 triangles, 4914, 6601 of 10976 triangles, 4952, 4941 of 10060 triangles, |
| 9371 | | 4710, 3265 of 11424 triangles, 4932, 5705 of 10540 triangles, 4922, 2699 of |
| 9372 | | 12076 triangles, 4146, 4602 of 9840 triangles, 4775, 4671, 3540 of 9924 |
| 9373 | | triangles, 4729, 3033 of 8764 triangles, 4680, 1509 of 9780 triangles, 4829, |
| 9374 | | 4823, 2999 of 9492 triangles, 4806, 2571 of 9124 triangles, 4409, 3902 of 8288 |
| 9375 | | triangles, 4777, 4386 of 9908 triangles, 4690, 1212 of 8044 triangles, 4860, |
| 9376 | | 7037 of 8564 triangles, 4858, 1787 of 9240 triangles, 4167, 5091 of 9276 |
| 9377 | | triangles, 4744, 1927 of 8056 triangles, 4857, 5105 of 8268 triangles, 4783, |
| 9378 | | 4427, 1470 of 7952 triangles, 4242, 5623 of 6928 triangles, 4793, 1778 of 7528 |
| 9379 | | triangles, 4799, 3560 of 7860 triangles, 4526, 810 of 8160 triangles, 4156, |
| 9380 | | 3036 of 7056 triangles, 4853, 3870 of 7512 triangles, 4393, 447 of 6884 |
| 9381 | | triangles, 4505, 1549 of 6432 triangles, 4822, 3122 of 6232 triangles, 3688, |
| 9382 | | 2024 of 4816 triangles, 4254, 220 of 4892 triangles, 4566, 1624 of 4880 |
| 9383 | | triangles, 1 PflA-2.1A-230911.mrc |
| 9384 | | |
| 9385 | | > hide #!1 models |
| 9386 | | |
| 9387 | | > select add #2.239 |
| 9388 | | |
| 9389 | | 101 models selected |
| 9390 | | |
| 9391 | | > select add #2.41 |
| 9392 | | |
| 9393 | | 102 models selected |
| 9394 | | |
| 9395 | | > select add #2.272 |
| 9396 | | |
| 9397 | | 103 models selected |
| 9398 | | |
| 9399 | | > select add #2.166 |
| 9400 | | |
| 9401 | | 104 models selected |
| 9402 | | |
| 9403 | | > select add #2.188 |
| 9404 | | |
| 9405 | | 105 models selected |
| 9406 | | Drag select of 4894, 13014 of 34032 triangles, 4767, 4694, 13173 of 18900 |
| 9407 | | triangles, 4711, 4723, 4712, 4760, 9477 of 11008 triangles, 4841, 4740, 4308 |
| 9408 | | Drag select of 4903, 5664 of 13508 triangles, 4904, 233 of 12368 triangles, |
| 9409 | | 4896, 10603 of 11052 triangles, 4692, 3757 of 10748 triangles, 4934, 2285 of |
| 9410 | | 10452 triangles, 4722, 8320 of 9168 triangles, 4966, 138 of 8844 triangles, |
| 9411 | | 4446, 1502 of 8072 triangles, 4788, 4826, 4727, 7222 of 7424 triangles |
| 9412 | | |
| 9413 | | > select add #2.278 |
| 9414 | | |
| 9415 | | 127 models selected |
| 9416 | | Grouped 125 regions |
| 9417 | | Opened PflA-2.1A-230911_imasked as #3, grid size 240,240,240, pixel 2.1, shown |
| 9418 | | at step 1, values float32 |
| 9419 | | Segmenting PflA-2.1A-230911_imasked, density threshold 0.046682 |
| 9420 | | Showing 170 region surfaces |
| 9421 | | 1322 watershed regions, grouped to 170 regions |
| 9422 | | Showing PflA-2.seg - 170 regions, 170 surfaces |
| 9423 | | |
| 9424 | | > select subtract #1 |
| 9425 | | |
| 9426 | | Nothing selected |
| 9427 | | |
| 9428 | | > hide #!2 models |
| 9429 | | |
| 9430 | | > open /Volumes/Backup-95/Chimera-2023/PflB-PflA-project/Start- |
| 9431 | | > from_June2024/For-FlgY-model_June2024/Segments/FlgY-with-joints.mrc |
| 9432 | | |
| 9433 | | Opened FlgY-with-joints.mrc as #4, grid size 220,220,220, pixel 4.3, shown at |
| 9434 | | level 0.346, step 1, values float32 |
| 9435 | | |
| 9436 | | > select add #4 |
| 9437 | | |
| 9438 | | 2 models selected |
| 9439 | | |
| 9440 | | > view matrix models #4,1,0,0,-273.89,0,1,0,-9.814,0,0,1,-18.309 |
| 9441 | | |
| 9442 | | > volume #4 level 0.5615 |
| 9443 | | |
| 9444 | | > view matrix models #4,1,0,0,-248.02,0,1,0,-8.3112,0,0,1,-16.835 |
| 9445 | | |
| 9446 | | > view matrix models #4,1,0,0,-251.4,0,1,0,-10.631,0,0,1,-16.514 |
| 9447 | | |
| 9448 | | > ui mousemode right "rotate selected models" |
| 9449 | | |
| 9450 | | > view matrix models |
| 9451 | | > #4,1,0.0014314,0.00027573,-251.39,-0.0014291,0.99996,-0.008294,-10.93,-0.00028759,0.0082936,0.99997,-16.509 |
| 9452 | | |
| 9453 | | > ui mousemode right "translate selected models" |
| 9454 | | |
| 9455 | | > view orient |
| 9456 | | |
| 9457 | | > ui mousemode right "rotate selected models" |
| 9458 | | |
| 9459 | | > view matrix models |
| 9460 | | > #4,0.79655,0.60246,-0.05048,-254.13,-0.60188,0.7981,0.027742,-14.604,0.057002,0.0082847,0.99834,-16.115 |
| 9461 | | |
| 9462 | | > close #4 |
| 9463 | | |
| 9464 | | Segmenting PflA-2.1A-230911_imasked, density threshold 0.046682 |
| 9465 | | Showing 170 region surfaces |
| 9466 | | 1322 watershed regions, grouped to 170 regions |
| 9467 | | Showing PflA-2.seg - 170 regions, 170 surfaces |
| 9468 | | |
| 9469 | | > select #2.140 |
| 9470 | | |
| 9471 | | 1 model selected |
| 9472 | | |
| 9473 | | > select add #2.15 |
| 9474 | | |
| 9475 | | 2 models selected |
| 9476 | | |
| 9477 | | > select add #2.30 |
| 9478 | | |
| 9479 | | 3 models selected |
| 9480 | | |
| 9481 | | > select add #2.61 |
| 9482 | | |
| 9483 | | 4 models selected |
| 9484 | | |
| 9485 | | > select add #2.34 |
| 9486 | | |
| 9487 | | 5 models selected |
| 9488 | | |
| 9489 | | > select add #2.58 |
| 9490 | | |
| 9491 | | 6 models selected |
| 9492 | | |
| 9493 | | > select add #2.79 |
| 9494 | | |
| 9495 | | 7 models selected |
| 9496 | | |
| 9497 | | > select add #2.102 |
| 9498 | | |
| 9499 | | 8 models selected |
| 9500 | | Grouped 8 regions |
| 9501 | | |
| 9502 | | > select add #2.11 |
| 9503 | | |
| 9504 | | 2 models selected |
| 9505 | | |
| 9506 | | > select add #2.99 |
| 9507 | | |
| 9508 | | 3 models selected |
| 9509 | | |
| 9510 | | > select subtract #2.99 |
| 9511 | | |
| 9512 | | 2 models selected |
| 9513 | | |
| 9514 | | > select #2.11 |
| 9515 | | |
| 9516 | | 1 model selected |
| 9517 | | |
| 9518 | | > select add #2.99 |
| 9519 | | |
| 9520 | | 2 models selected |
| 9521 | | |
| 9522 | | > select add #2.109 |
| 9523 | | |
| 9524 | | 3 models selected |
| 9525 | | Grouped 3 regions |
| 9526 | | |
| 9527 | | > select clear |
| 9528 | | |
| 9529 | | > select #2.15 |
| 9530 | | |
| 9531 | | 1 model selected |
| 9532 | | |
| 9533 | | > select add #2.74 |
| 9534 | | |
| 9535 | | 2 models selected |
| 9536 | | |
| 9537 | | > select add #2.11 |
| 9538 | | |
| 9539 | | 3 models selected |
| 9540 | | |
| 9541 | | > select add #2.111 |
| 9542 | | |
| 9543 | | 4 models selected |
| 9544 | | |
| 9545 | | > select add #2.101 |
| 9546 | | |
| 9547 | | 5 models selected |
| 9548 | | |
| 9549 | | > select add #2.167 |
| 9550 | | |
| 9551 | | 6 models selected |
| 9552 | | Grouped 6 regions |
| 9553 | | |
| 9554 | | > select add #2.31 |
| 9555 | | |
| 9556 | | 2 models selected |
| 9557 | | |
| 9558 | | > select add #2.38 |
| 9559 | | |
| 9560 | | 3 models selected |
| 9561 | | Grouped 3 regions |
| 9562 | | |
| 9563 | | > select #2.11 |
| 9564 | | |
| 9565 | | 1 model selected |
| 9566 | | |
| 9567 | | > hide #!3 models |
| 9568 | | |
| 9569 | | Opened PflA-2_imasked as #4, grid size 240,240,240, pixel 2.1, shown at step |
| 9570 | | 1, values float32 |
| 9571 | | |
| 9572 | | > save /Volumes/Backup-95/Chimera-2023/PflB-PflA-project/Start- |
| 9573 | | > from_June2024/Sep11_2023/Segment_june11_2024/1x_Cage-units.mrc models #4 |
| 9574 | | |
| 9575 | | > save /Volumes/Backup-95/Chimera-2023/PflB-PflA-project/Start- |
| 9576 | | > from_June2024/Sep11_2023/Segment_june11_2024/Segment-local-PflAB.cxs |
| 9577 | | > includeMaps true |
| 9578 | | |
| 9579 | | ——— End of log from Tue Jun 11 18:45:39 2024 ——— |
| 9580 | | |
| 9581 | | opened ChimeraX session |
| 9582 | | Showing PflA-2.seg - 154 regions, 154 surfaces |
| 9583 | | |
| 9584 | | > hide #!2 models |
| 9585 | | |
| 9586 | | > hide #!4 models |
| 9587 | | |
| 9588 | | > show #!2 models |
| 9589 | | |
| 9590 | | > select #2.83 |
| 9591 | | |
| 9592 | | 1 model selected |
| 9593 | | |
| 9594 | | > select add #2.96 |
| 9595 | | |
| 9596 | | 2 models selected |
| 9597 | | |
| 9598 | | > select add #2.154 |
| 9599 | | |
| 9600 | | 3 models selected |
| 9601 | | |
| 9602 | | > select subtract #2.17 |
| 9603 | | |
| 9604 | | 150 models selected |
| 9605 | | |
| 9606 | | > select clear |
| 9607 | | |
| 9608 | | > select #2.17 |
| 9609 | | |
| 9610 | | 1 model selected |
| 9611 | | |
| 9612 | | > select add #2.154 |
| 9613 | | |
| 9614 | | 2 models selected |
| 9615 | | |
| 9616 | | > select add #2.96 |
| 9617 | | |
| 9618 | | 3 models selected |
| 9619 | | |
| 9620 | | > select add #2.83 |
| 9621 | | |
| 9622 | | 4 models selected |
| 9623 | | Grouped 4 regions |
| 9624 | | Opened PflA-2_imasked as #5, grid size 240,240,240, pixel 2.1, shown at step |
| 9625 | | 1, values float32 |
| 9626 | | Segmenting PflA-2_imasked, density threshold 0.046682 |
| 9627 | | Showing 20 region surfaces |
| 9628 | | 103 watershed regions, grouped to 20 regions |
| 9629 | | Showing PflA-2_imasked.seg - 20 regions, 20 surfaces |
| 9630 | | |
| 9631 | | > select #2.7 |
| 9632 | | |
| 9633 | | 1 model selected |
| 9634 | | |
| 9635 | | > hide #!5 models |
| 9636 | | |
| 9637 | | Opened PflA-2_imasked_imasked as #6, grid size 240,240,240, pixel 2.1, shown |
| 9638 | | at step 1, values float32 |
| 9639 | | |
| 9640 | | > save /Volumes/Backup-95/Chimera-2023/PflB-PflA-project/Start- |
| 9641 | | > from_June2024/Sep11_2023/Segment_june11_2024/MotB_PG.mrc models #6 |
| 9642 | | |
| 9643 | | Opened PflA-2_imasked_imasked as #7, grid size 240,240,240, pixel 2.1, shown |
| 9644 | | at step 1, values float32 |
| 9645 | | Segmenting PflA-2_imasked_imasked, density threshold 0.046682 |
| 9646 | | Showing 19 region surfaces |
| 9647 | | 99 watershed regions, grouped to 19 regions |
| 9648 | | Showing PflA-2_imasked_imasked.seg - 19 regions, 19 surfaces |
| 9649 | | |
| 9650 | | > hide #!6 models |
| 9651 | | |
| 9652 | | > hide #!7 models |
| 9653 | | |
| 9654 | | > select #2.17 |
| 9655 | | |
| 9656 | | 1 model selected |
| 9657 | | |
| 9658 | | > select add #2.2 |
| 9659 | | |
| 9660 | | 2 models selected |
| 9661 | | |
| 9662 | | > select add #2.4 |
| 9663 | | |
| 9664 | | 3 models selected |
| 9665 | | |
| 9666 | | > select add #2.10 |
| 9667 | | |
| 9668 | | 4 models selected |
| 9669 | | Grouped 4 regions |
| 9670 | | |
| 9671 | | > select #2.6 |
| 9672 | | |
| 9673 | | 1 model selected |
| 9674 | | Ungrouped to 2 regions |
| 9675 | | Ungrouped to 4 regions |
| 9676 | | |
| 9677 | | > select clear |
| 9678 | | |
| 9679 | | > select #2.17 |
| 9680 | | |
| 9681 | | 1 model selected |
| 9682 | | |
| 9683 | | > select add #2.2 |
| 9684 | | |
| 9685 | | 2 models selected |
| 9686 | | |
| 9687 | | > select #2.17 |
| 9688 | | |
| 9689 | | 1 model selected |
| 9690 | | Ungrouped to 2 regions |
| 9691 | | |
| 9692 | | > select clear |
| 9693 | | |
| 9694 | | > select #2.2 |
| 9695 | | |
| 9696 | | 1 model selected |
| 9697 | | |
| 9698 | | > select subtract #2.2 |
| 9699 | | |
| 9700 | | Nothing selected |
| 9701 | | |
| 9702 | | > select add #2.10 |
| 9703 | | |
| 9704 | | 1 model selected |
| 9705 | | |
| 9706 | | > select clear |
| 9707 | | |
| 9708 | | Showing 20 region surfaces |
| 9709 | | |
| 9710 | | > select clear |
| 9711 | | |
| 9712 | | > select #2.2 |
| 9713 | | |
| 9714 | | 1 model selected |
| 9715 | | |
| 9716 | | > select add #2.10 |
| 9717 | | |
| 9718 | | 2 models selected |
| 9719 | | Grouped 2 regions |
| 9720 | | |
| 9721 | | > select clear |
| 9722 | | |
| 9723 | | > select #2.2 |
| 9724 | | |
| 9725 | | 1 model selected |
| 9726 | | Ungrouped to 2 regions |
| 9727 | | |
| 9728 | | > select #2.17 |
| 9729 | | |
| 9730 | | 1 model selected |
| 9731 | | |
| 9732 | | > hide #!2 models |
| 9733 | | |
| 9734 | | > show #!7 models |
| 9735 | | |
| 9736 | | > ui tool show "Side View" |
| 9737 | | |
| 9738 | | > show #!2 models |
| 9739 | | |
| 9740 | | > select #2.17 |
| 9741 | | |
| 9742 | | 1 model selected |
| 9743 | | |
| 9744 | | > select clear |
| 9745 | | |
| 9746 | | > select #2.17 |
| 9747 | | |
| 9748 | | 1 model selected |
| 9749 | | Opened PflA-2_imasked_imasked_imasked as #8, grid size 240,240,240, pixel 2.1, |
| 9750 | | shown at step 1, values float32 |
| 9751 | | |
| 9752 | | > save /Volumes/Backup-95/Chimera-2023/PflB-PflA-project/Start- |
| 9753 | | > from_June2024/Sep11_2023/Segment_june11_2024/PflA.mrc models #8 |
| 9754 | | |
| 9755 | | Opened PflA-2_imasked_imasked_imasked as #9, grid size 240,240,240, pixel 2.1, |
| 9756 | | shown at step 1, values float32 |
| 9757 | | Segmenting PflA-2_imasked_imasked_imasked, density threshold 0.046682 |
| 9758 | | Showing 15 region surfaces |
| 9759 | | 71 watershed regions, grouped to 15 regions |
| 9760 | | Showing PflA-2_imasked_imasked_imasked.seg - 15 regions, 15 surfaces |
| 9761 | | |
| 9762 | | > hide #!7 models |
| 9763 | | |
| 9764 | | > hide #!8 models |
| 9765 | | |
| 9766 | | > select #2.9 |
| 9767 | | |
| 9768 | | 1 model selected |
| 9769 | | |
| 9770 | | > select add #2.12 |
| 9771 | | |
| 9772 | | 2 models selected |
| 9773 | | |
| 9774 | | > select add #2.7 |
| 9775 | | |
| 9776 | | 3 models selected |
| 9777 | | |
| 9778 | | > select add #2.13 |
| 9779 | | |
| 9780 | | 4 models selected |
| 9781 | | |
| 9782 | | > select add #2.15 |
| 9783 | | |
| 9784 | | 5 models selected |
| 9785 | | |
| 9786 | | > select add #2.10 |
| 9787 | | |
| 9788 | | 6 models selected |
| 9789 | | Grouped 6 regions |
| 9790 | | Opened PflA-2_imasked_imasked_imasked_imasked as #10, grid size 240,240,240, |
| 9791 | | pixel 2.1, shown at step 1, values float32 |
| 9792 | | |
| 9793 | | > save /Volumes/Backup-95/Chimera-2023/PflB-PflA-project/Start- |
| 9794 | | > from_June2024/Sep11_2023/Segment_june11_2024/Cage.mrc models #10 |
| 9795 | | |
| 9796 | | Opened PflA-2_imasked_imasked_imasked_imasked as #11, grid size 240,240,240, |
| 9797 | | pixel 2.1, shown at step 1, values float32 |
| 9798 | | Segmenting PflA-2_imasked_imasked_imasked_imasked, density threshold 0.046682 |
| 9799 | | Showing 9 region surfaces |
| 9800 | | 50 watershed regions, grouped to 9 regions |
| 9801 | | Showing PflA-2_imasked_imasked_imasked_imasked.seg - 9 regions, 9 surfaces |
| 9802 | | |
| 9803 | | > hide #!9 models |
| 9804 | | |
| 9805 | | > hide #!10 models |
| 9806 | | |
| 9807 | | > hide #!11 models |
| 9808 | | |
| 9809 | | > select #2.4 |
| 9810 | | |
| 9811 | | 1 model selected |
| 9812 | | |
| 9813 | | > select #2.1 |
| 9814 | | |
| 9815 | | 1 model selected |
| 9816 | | |
| 9817 | | > select #2.1 |
| 9818 | | |
| 9819 | | 1 model selected |
| 9820 | | Ungrouped to 2 regions |
| 9821 | | Ungrouped to 4 regions |
| 9822 | | |
| 9823 | | > select #2.1 |
| 9824 | | |
| 9825 | | 1 model selected |
| 9826 | | |
| 9827 | | > select #2.1 |
| 9828 | | |
| 9829 | | 1 model selected |
| 9830 | | Ungrouped to 4 regions |
| 9831 | | Ungrouped to 2 regions |
| 9832 | | Ungrouped to 0 regions |
| 9833 | | |
| 9834 | | > select #2.4 |
| 9835 | | |
| 9836 | | 1 model selected |
| 9837 | | |
| 9838 | | > select add #2.1 |
| 9839 | | |
| 9840 | | 2 models selected |
| 9841 | | |
| 9842 | | > select add #2.11 |
| 9843 | | |
| 9844 | | 3 models selected |
| 9845 | | |
| 9846 | | > select add #2.10 |
| 9847 | | |
| 9848 | | 4 models selected |
| 9849 | | |
| 9850 | | > select add #2.16 |
| 9851 | | |
| 9852 | | 5 models selected |
| 9853 | | Grouped 5 regions |
| 9854 | | |
| 9855 | | > select #2.6 |
| 9856 | | |
| 9857 | | 1 model selected |
| 9858 | | |
| 9859 | | > select add #2.1 |
| 9860 | | |
| 9861 | | 2 models selected |
| 9862 | | Grouped 2 regions |
| 9863 | | |
| 9864 | | > select clear |
| 9865 | | |
| 9866 | | > select #2.1 |
| 9867 | | |
| 9868 | | 1 model selected |
| 9869 | | Opened PflA-2_imasked_imasked_imasked_imasked_imasked as #12, grid size |
| 9870 | | 240,240,240, pixel 2.1, shown at step 1, values float32 |
| 9871 | | |
| 9872 | | > save /Volumes/Backup-95/Chimera-2023/PflB-PflA-project/Start- |
| 9873 | | > from_June2024/Sep11_2023/Segment_june11_2024/PflB.mrc models #12 |
| 9874 | | |
| 9875 | | Opened PflA-2_imasked_imasked_imasked_imasked_imasked as #13, grid size |
| 9876 | | 240,240,240, pixel 2.1, shown at step 1, values float32 |
| 9877 | | Segmenting PflA-2_imasked_imasked_imasked_imasked_imasked, density threshold |
| 9878 | | 0.046682 |
| 9879 | | Showing 7 region surfaces |
| 9880 | | 34 watershed regions, grouped to 7 regions |
| 9881 | | Showing PflA-2_imasked_imasked_imasked_imasked_imasked.seg - 7 regions, 7 |
| 9882 | | surfaces |
| 9883 | | |
| 9884 | | > hide #!12 models |
| 9885 | | |
| 9886 | | > select add #2.7 |
| 9887 | | |
| 9888 | | 1 model selected |
| 9889 | | Drag select of 51, 7 of 14852 triangles, 13 |
| 9890 | | PflA-2_imasked_imasked_imasked_imasked_imasked |
| 9891 | | |
| 9892 | | > select add #2.4 |
| 9893 | | |
| 9894 | | 5 models selected |
| 9895 | | Opened PflA-2_imasked_imasked_imasked_imasked_imasked_imasked as #14, grid |
| 9896 | | size 240,240,240, pixel 2.1, shown at step 1, values float32 |
| 9897 | | |
| 9898 | | > save /Volumes/Backup-95/Chimera-2023/PflB-PflA-project/Start- |
| 9899 | | > from_June2024/Sep11_2023/Segment_june11_2024/FliL.mrc models #14 |
| 9900 | | |
| 9901 | | Opened PflA-2_imasked_imasked_imasked_imasked_imasked_imasked as #15, grid |
| 9902 | | size 240,240,240, pixel 2.1, shown at step 1, values float32 |
| 9903 | | Segmenting PflA-2_imasked_imasked_imasked_imasked_imasked_imasked, density |
| 9904 | | threshold 0.046682 |
| 9905 | | Showing 4 region surfaces |
| 9906 | | 18 watershed regions, grouped to 4 regions |
| 9907 | | Showing PflA-2_imasked_imasked_imasked_imasked_imasked_imasked.seg - 4 |
| 9908 | | regions, 4 surfaces |
| 9909 | | |
| 9910 | | > select #2.3 |
| 9911 | | |
| 9912 | | 1 model selected |
| 9913 | | |
| 9914 | | > select add #2.4 |
| 9915 | | |
| 9916 | | 2 models selected |
| 9917 | | |
| 9918 | | > select add #2.1 |
| 9919 | | |
| 9920 | | 3 models selected |
| 9921 | | |
| 9922 | | > select add #2.2 |
| 9923 | | |
| 9924 | | 4 models selected |
| 9925 | | |
| 9926 | | > hide #!2 models |
| 9927 | | |
| 9928 | | > select add #2 |
| 9929 | | |
| 9930 | | 5 models selected |
| 9931 | | |
| 9932 | | > hide #!13 models |
| 9933 | | |
| 9934 | | > hide #!14 models |
| 9935 | | |
| 9936 | | > save /Volumes/Backup-95/Chimera-2023/PflB-PflA-project/Start- |
| 9937 | | > from_June2024/Sep11_2023/Segment_june11_2024/Other_Cage.mrc models #15 |
| 9938 | | |
| 9939 | | > save /Volumes/Backup-95/Chimera-2023/PflB-PflA-project/Start- |
| 9940 | | > from_June2024/Sep11_2023/Segment_june11_2024/Segment2-local-PflAB.cxs |
| 9941 | | > includeMaps true |
| 9942 | | |
| 9943 | | ——— End of log from Tue Jun 11 23:04:54 2024 ——— |
| 9944 | | |
| 9945 | | opened ChimeraX session |
| 9946 | | Showing PflA-2_imasked_imasked_imasked_imasked_imasked_imasked.seg - 4 |
| 9947 | | regions, 4 surfaces |
| 9948 | | |
| 9949 | | > show #!11 models |
| 9950 | | |
| 9951 | | > show #!12 models |
| 9952 | | |
| 9953 | | > show #!13 models |
| 9954 | | |
| 9955 | | > show #!14 models |
| 9956 | | |
| 9957 | | > show #!10 models |
| 9958 | | |
| 9959 | | > show #!9 models |
| 9960 | | |
| 9961 | | > show #!8 models |
| 9962 | | |
| 9963 | | > show #!6 models |
| 9964 | | |
| 9965 | | > show #!5 models |
| 9966 | | |
| 9967 | | > show #!4 models |
| 9968 | | |
| 9969 | | > show #!3 models |
| 9970 | | |
| 9971 | | > close session |
| 9972 | | |
| 9973 | | > open /Volumes/Backup-95/Chimera-2023/PflB-PflA-project/Start- |
| 9974 | | > from_June2024/July_2024/Final- |
| 9975 | | > version_model/Flo_PflA_Local/PflA-2.1A-230911.mrc |
| 9976 | | |
| 9977 | | Opened PflA-2.1A-230911.mrc as #1, grid size 240,240,240, pixel 2.1, shown at |
| 9978 | | level 4.29, step 1, values float32 |
| 9979 | | |
| 9980 | | > volume #1 level 1.73 |
| 9981 | | |
| 9982 | | > volume #1 level 0.1847 |
| 9983 | | |
| 9984 | | > ui tool show "Segment Map" |
| 9985 | | |
| 9986 | | Segmenting PflA-2.1A-230911.mrc, density threshold 0.184695 |
| 9987 | | Showing 295 region surfaces |
| 9988 | | 3349 watershed regions, grouped to 295 regions |
| 9989 | | Showing PflA-2.1A-230911.seg - 295 regions, 295 surfaces |
| 9990 | | |
| 9991 | | > select add #2.110 |
| 9992 | | |
| 9993 | | 1 model selected |
| 9994 | | |
| 9995 | | > select add #2.62 |
| 9996 | | |
| 9997 | | 2 models selected |
| 9998 | | |
| 9999 | | > select add #2.5 |
| 10000 | | |
| 10001 | | 3 models selected |
| 10002 | | |
| 10003 | | > select add #2.7 |
| 10004 | | |
| 10005 | | 4 models selected |
| 10006 | | |
| 10007 | | > select add #2.15 |
| 10008 | | |
| 10009 | | 5 models selected |
| 10010 | | |
| 10011 | | > select add #2.42 |
| 10012 | | |
| 10013 | | 6 models selected |
| 10014 | | |
| 10015 | | > select add #2.104 |
| 10016 | | |
| 10017 | | 7 models selected |
| 10018 | | |
| 10019 | | > select add #2.174 |
| 10020 | | |
| 10021 | | 8 models selected |
| 10022 | | |
| 10023 | | > select add #2.165 |
| 10024 | | |
| 10025 | | 9 models selected |
| 10026 | | |
| 10027 | | > select add #2.280 |
| 10028 | | |
| 10029 | | 10 models selected |
| 10030 | | |
| 10031 | | > select add #2.176 |
| 10032 | | |
| 10033 | | 11 models selected |
| 10034 | | |
| 10035 | | > select add #2.192 |
| 10036 | | |
| 10037 | | 12 models selected |
| 10038 | | |
| 10039 | | > select add #2.86 |
| 10040 | | |
| 10041 | | 13 models selected |
| 10042 | | |
| 10043 | | > select add #2.234 |
| 10044 | | |
| 10045 | | 14 models selected |
| 10046 | | |
| 10047 | | > select add #2.144 |
| 10048 | | |
| 10049 | | 15 models selected |
| 10050 | | |
| 10051 | | > select add #2.14 |
| 10052 | | |
| 10053 | | 16 models selected |
| 10054 | | |
| 10055 | | > select add #2.207 |
| 10056 | | |
| 10057 | | 17 models selected |
| 10058 | | |
| 10059 | | > select add #2.111 |
| 10060 | | |
| 10061 | | 18 models selected |
| 10062 | | |
| 10063 | | > select add #2.18 |
| 10064 | | |
| 10065 | | 19 models selected |
| 10066 | | |
| 10067 | | > select add #2.112 |
| 10068 | | |
| 10069 | | 20 models selected |
| 10070 | | |
| 10071 | | > select add #2.263 |
| 10072 | | |
| 10073 | | 21 models selected |
| 10074 | | |
| 10075 | | > select add #2.55 |
| 10076 | | |
| 10077 | | 22 models selected |
| 10078 | | |
| 10079 | | > select add #2.82 |
| 10080 | | |
| 10081 | | 23 models selected |
| 10082 | | |
| 10083 | | > select add #2.288 |
| 10084 | | |
| 10085 | | 24 models selected |
| 10086 | | |
| 10087 | | > select add #2.143 |
| 10088 | | |
| 10089 | | 25 models selected |
| 10090 | | |
| 10091 | | > select add #2.125 |
| 10092 | | |
| 10093 | | 26 models selected |
| 10094 | | |
| 10095 | | > select add #2.175 |
| 10096 | | |
| 10097 | | 27 models selected |
| 10098 | | |
| 10099 | | > select add #2.63 |
| 10100 | | |
| 10101 | | 28 models selected |
| 10102 | | Drag select of 4753, 6 of 12864 triangles, 4945, 7 of 13180 triangles, 4867, |
| 10103 | | 16 of 9972 triangles, 3781, 12 of 4436 triangles |
| 10104 | | |
| 10105 | | > select add #2.30 |
| 10106 | | |
| 10107 | | 33 models selected |
| 10108 | | |
| 10109 | | > select add #2.24 |
| 10110 | | |
| 10111 | | 34 models selected |
| 10112 | | |
| 10113 | | > select add #2.70 |
| 10114 | | |
| 10115 | | 35 models selected |
| 10116 | | |
| 10117 | | > select add #2.35 |
| 10118 | | |
| 10119 | | 36 models selected |
| 10120 | | |
| 10121 | | > select add #2.236 |
| 10122 | | |
| 10123 | | 37 models selected |
| 10124 | | |
| 10125 | | > select add #2.33 |
| 10126 | | |
| 10127 | | 38 models selected |
| 10128 | | |
| 10129 | | > select add #2.40 |
| 10130 | | |
| 10131 | | 39 models selected |
| 10132 | | |
| 10133 | | > select subtract #2.40 |
| 10134 | | |
| 10135 | | 38 models selected |
| 10136 | | |
| 10137 | | > select add #2.40 |
| 10138 | | |
| 10139 | | 39 models selected |
| 10140 | | |
| 10141 | | > select add #2.46 |
| 10142 | | |
| 10143 | | 40 models selected |
| 10144 | | |
| 10145 | | > select add #2.84 |
| 10146 | | |
| 10147 | | 41 models selected |
| 10148 | | |
| 10149 | | > select add #2.49 |
| 10150 | | |
| 10151 | | 42 models selected |
| 10152 | | |
| 10153 | | > select add #2.137 |
| 10154 | | |
| 10155 | | 43 models selected |
| 10156 | | |
| 10157 | | > select add #2.172 |
| 10158 | | |
| 10159 | | 44 models selected |
| 10160 | | |
| 10161 | | > select add #2.61 |
| 10162 | | |
| 10163 | | 45 models selected |
| 10164 | | Drag select of 4929, 12 of 27404 triangles, 4933, 6 of 16236 triangles, 4907, |
| 10165 | | 6 of 14460 triangles, 1 PflA-2.1A-230911.mrc |
| 10166 | | |
| 10167 | | > select subtract #2.60 |
| 10168 | | |
| 10169 | | 49 models selected |
| 10170 | | |
| 10171 | | > select add #2.136 |
| 10172 | | |
| 10173 | | 50 models selected |
| 10174 | | Grouped 48 regions |
| 10175 | | |
| 10176 | | > select add #2.60 |
| 10177 | | |
| 10178 | | 4 models selected |
| 10179 | | |
| 10180 | | > select clear |
| 10181 | | |
| 10182 | | > select #2.23 |
| 10183 | | |
| 10184 | | 1 model selected |
| 10185 | | |
| 10186 | | > select add #2.89 |
| 10187 | | |
| 10188 | | 2 models selected |
| 10189 | | |
| 10190 | | > select add #2.228 |
| 10191 | | |
| 10192 | | 3 models selected |
| 10193 | | |
| 10194 | | > select add #2.34 |
| 10195 | | |
| 10196 | | 4 models selected |
| 10197 | | |
| 10198 | | > select add #2.109 |
| 10199 | | |
| 10200 | | 5 models selected |
| 10201 | | |
| 10202 | | > select add #2.221 |
| 10203 | | |
| 10204 | | 6 models selected |
| 10205 | | |
| 10206 | | > select add #2.28 |
| 10207 | | |
| 10208 | | 7 models selected |
| 10209 | | |
| 10210 | | > select add #2.96 |
| 10211 | | |
| 10212 | | 8 models selected |
| 10213 | | |
| 10214 | | > select add #2.13 |
| 10215 | | |
| 10216 | | 9 models selected |
| 10217 | | |
| 10218 | | > select add #2.157 |
| 10219 | | |
| 10220 | | 10 models selected |
| 10221 | | |
| 10222 | | > select add #2.44 |
| 10223 | | |
| 10224 | | 11 models selected |
| 10225 | | |
| 10226 | | > select add #2.32 |
| 10227 | | |
| 10228 | | 12 models selected |
| 10229 | | |
| 10230 | | > select add #2.227 |
| 10231 | | |
| 10232 | | 13 models selected |
| 10233 | | |
| 10234 | | > select add #2.134 |
| 10235 | | |
| 10236 | | 14 models selected |
| 10237 | | |
| 10238 | | > select add #2.216 |
| 10239 | | |
| 10240 | | 15 models selected |
| 10241 | | |
| 10242 | | > select add #2.212 |
| 10243 | | |
| 10244 | | 16 models selected |
| 10245 | | Grouped 16 regions |
| 10246 | | |
| 10247 | | > select add #2.99 |
| 10248 | | |
| 10249 | | 2 models selected |
| 10250 | | |
| 10251 | | > select add #2.83 |
| 10252 | | |
| 10253 | | 3 models selected |
| 10254 | | |
| 10255 | | > select add #2.19 |
| 10256 | | |
| 10257 | | 4 models selected |
| 10258 | | |
| 10259 | | > select add #2.249 |
| 10260 | | |
| 10261 | | 5 models selected |
| 10262 | | |
| 10263 | | > select subtract #2.249 |
| 10264 | | |
| 10265 | | 4 models selected |
| 10266 | | |
| 10267 | | > select add #2.249 |
| 10268 | | |
| 10269 | | 5 models selected |
| 10270 | | |
| 10271 | | > select add #2.171 |
| 10272 | | |
| 10273 | | 6 models selected |
| 10274 | | |
| 10275 | | > select add #2.87 |
| 10276 | | |
| 10277 | | 7 models selected |
| 10278 | | |
| 10279 | | > select add #2.51 |
| 10280 | | |
| 10281 | | 8 models selected |
| 10282 | | |
| 10283 | | > select add #2.200 |
| 10284 | | |
| 10285 | | 9 models selected |
| 10286 | | |
| 10287 | | > select add #2.76 |
| 10288 | | |
| 10289 | | 10 models selected |
| 10290 | | |
| 10291 | | > select add #2.37 |
| 10292 | | |
| 10293 | | 11 models selected |
| 10294 | | |
| 10295 | | > select add #2.211 |
| 10296 | | |
| 10297 | | 12 models selected |
| 10298 | | |
| 10299 | | > select add #2.225 |
| 10300 | | |
| 10301 | | 13 models selected |
| 10302 | | |
| 10303 | | > select add #2.79 |
| 10304 | | |
| 10305 | | 14 models selected |
| 10306 | | |
| 10307 | | > select add #2.237 |
| 10308 | | |
| 10309 | | 15 models selected |
| 10310 | | |
| 10311 | | > select add #2.181 |
| 10312 | | |
| 10313 | | 16 models selected |
| 10314 | | |
| 10315 | | > select add #2.184 |
| 10316 | | |
| 10317 | | 17 models selected |
| 10318 | | |
| 10319 | | > select add #2.26 |
| 10320 | | |
| 10321 | | 18 models selected |
| 10322 | | |
| 10323 | | > select add #2.251 |
| 10324 | | |
| 10325 | | 19 models selected |
| 10326 | | |
| 10327 | | > select add #2.271 |
| 10328 | | |
| 10329 | | 20 models selected |
| 10330 | | Grouped 20 regions |
| 10331 | | |
| 10332 | | > select add #2.77 |
| 10333 | | |
| 10334 | | 2 models selected |
| 10335 | | |
| 10336 | | > select add #2.29 |
| 10337 | | |
| 10338 | | 3 models selected |
| 10339 | | |
| 10340 | | > select add #2.154 |
| 10341 | | |
| 10342 | | 4 models selected |
| 10343 | | |
| 10344 | | > select add #2.72 |
| 10345 | | |
| 10346 | | 5 models selected |
| 10347 | | |
| 10348 | | > select add #2.60 |
| 10349 | | |
| 10350 | | 6 models selected |
| 10351 | | |
| 10352 | | > select add #2.223 |
| 10353 | | |
| 10354 | | 7 models selected |
| 10355 | | |
| 10356 | | > select add #2.258 |
| 10357 | | |
| 10358 | | 8 models selected |
| 10359 | | |
| 10360 | | > select add #2.246 |
| 10361 | | |
| 10362 | | 9 models selected |
| 10363 | | |
| 10364 | | > select add #2.108 |
| 10365 | | |
| 10366 | | 10 models selected |
| 10367 | | |
| 10368 | | > select add #2.187 |
| 10369 | | |
| 10370 | | 11 models selected |
| 10371 | | |
| 10372 | | > select add #2.239 |
| 10373 | | |
| 10374 | | 12 models selected |
| 10375 | | Grouped 12 regions |
| 10376 | | |
| 10377 | | > select add #2.214 |
| 10378 | | |
| 10379 | | 2 models selected |
| 10380 | | |
| 10381 | | > select add #2.240 |
| 10382 | | |
| 10383 | | 3 models selected |
| 10384 | | |
| 10385 | | > select add #2.5 |
| 10386 | | |
| 10387 | | 4 models selected |
| 10388 | | Grouped 4 regions |
| 10389 | | |
| 10390 | | > select add #2.56 |
| 10391 | | |
| 10392 | | 2 models selected |
| 10393 | | |
| 10394 | | > select add #2.159 |
| 10395 | | |
| 10396 | | 3 models selected |
| 10397 | | Grouped 3 regions |
| 10398 | | |
| 10399 | | > select add #2.122 |
| 10400 | | |
| 10401 | | 2 models selected |
| 10402 | | Grouped 2 regions |
| 10403 | | |
| 10404 | | > hide #!1 models |
| 10405 | | |
| 10406 | | Ungrouped to 2 regions |
| 10407 | | Ungrouped to 5 regions |
| 10408 | | Ungrouped to 21 regions |
| 10409 | | Ungrouped to 95 regions |
| 10410 | | |
| 10411 | | > select clear |
| 10412 | | |
| 10413 | | Drag select of 2080, 1729 of 1900 triangles, 1908, 2947, 576 of 2072 |
| 10414 | | triangles, 2865, 741 of 1336 triangles, 2719, 750 of 1448 triangles, 2779, |
| 10415 | | 1077 of 2408 triangles, 1906, 2629, 1477 of 2104 triangles, 2784, 686 of 1524 |
| 10416 | | triangles, 3769, 4739 of 5428 triangles, 2933, 1034 of 2308 triangles, 2066, |
| 10417 | | 3151 of 3180 triangles, 4339, 4000 of 5896 triangles, 2938, 1082 of 2372 |
| 10418 | | triangles, 2220, 3497, 3675, 3222 of 3340 triangles, 2216, 2057, 2880 of 2948 |
| 10419 | | triangles, 3793, 3805 of 4752 triangles, 4442, 3379 of 3756 triangles, 4564, |
| 10420 | | 2849 of 4116 triangles, 1964, 3592, 2076 of 2164 triangles, 4828, 1957 of 9008 |
| 10421 | | triangles, 4922, 12932 of 19224 triangles, 4907, 9492 of 14460 triangles, |
| 10422 | | 4737, 8287 of 12092 triangles, 4356, 5870 of 7912 triangles, 4969, 127818 of |
| 10423 | | 215268 triangles, 4880, 5733 of 8936 triangles, 4474, 5217 of 6700 triangles, |
| 10424 | | 4691, 11119 of 12868 triangles, 4958, 10083 of 14060 triangles, 4761, 8523 of |
| 10425 | | 10476 triangles, 2698, 1601 of 2268 triangles, 3422, 3523 of 4204 triangles, |
| 10426 | | 3007, 810 of 1864 triangles, 3785, 3399 of 4136 triangles, 2927, 1037 of 1388 |
| 10427 | | triangles, 2687, 1760 of 2584 triangles, 2186, 2835, 891 of 1416 triangles, |
| 10428 | | 3129, 457 of 864 triangles, 2699, 2140 of 2492 triangles, 1939, 4203, 5095 of |
| 10429 | | 6192 triangles, 3571, 1958 of 1996 triangles, 3671, 2079, 2949, 444 of 1212 |
| 10430 | | triangles, 2403, 1794 of 2060 triangles, 4966, 7398 of 10228 triangles, 4941, |
| 10431 | | 8976 of 12716 triangles, 4753, 8772 of 12864 triangles, 4944, 10068 of 15236 |
| 10432 | | triangles, 4932, 5328 of 14104 triangles, 4705, 10933 of 17972 triangles, |
| 10433 | | 4956, 9840 of 15096 triangles, 4096, 4933 of 6712 triangles, 4904, 4964 of |
| 10434 | | 27220 triangles, 4584, 3198 of 4632 triangles, 4685, 4916 of 11200 triangles, |
| 10435 | | 4965, 6846 of 12440 triangles, 4940, 12763 of 18084 triangles, 4939, 3067 of |
| 10436 | | 12096 triangles, 4799, 2637 of 15236 triangles, 4898, 788 of 13532 triangles, |
| 10437 | | 4301, 2382 of 4648 triangles, 4902, 6167 of 23188 triangles, 4485, 5113 of |
| 10438 | | 6248 triangles, 4919, 12179 of 19796 triangles, 4870, 449 of 10328 triangles, |
| 10439 | | 4906, 13362 of 19236 triangles, 4843, 8271 of 11168 triangles, 4943, 11254 of |
| 10440 | | 15304 triangles, 4910, 10584 of 15396 triangles, 4953, 11774 of 16520 |
| 10441 | | triangles, 4927, 7564 of 13064 triangles, 4758, 4696 of 20372 triangles, 4896, |
| 10442 | | 6893 of 11756 triangles, 4783, 8099 of 11256 triangles, 4935, 2929 of 9736 |
| 10443 | | triangles, 4908, 13910 of 19788 triangles, 4281, 4328 of 7764 triangles, 4946, |
| 10444 | | 10147 of 16072 triangles, 4831, 9103 of 14224 triangles, 4862, 5320 of 9596 |
| 10445 | | triangles, 4804, 10005 of 14140 triangles, 4794, 883 of 10880 triangles |
| 10446 | | Grouped 90 regions |
| 10447 | | |
| 10448 | | > select add #2.105 |
| 10449 | | |
| 10450 | | 2 models selected |
| 10451 | | |
| 10452 | | > select add #2.211 |
| 10453 | | |
| 10454 | | 3 models selected |
| 10455 | | |
| 10456 | | > select add #2.299 |
| 10457 | | |
| 10458 | | 4 models selected |
| 10459 | | Grouped 4 regions |
| 10460 | | Opened PflA-2.1A-230911_imasked as #3, grid size 240,240,240, pixel 2.1, shown |
| 10461 | | at step 1, values float32 |
| 10462 | | |
| 10463 | | > save /Volumes/Backup-95/Chimera-2023/PflB-PflA-project/Start- |
| 10464 | | > from_June2024/July_2024/Final- |
| 10465 | | > version_model/Flo_PflA_Local/Segment_July_26/Disk.mrc models #3 |
| 10466 | | |
| 10467 | | Opened PflA-2.1A-230911_imasked as #4, grid size 240,240,240, pixel 2.1, shown |
| 10468 | | at step 1, values float32 |
| 10469 | | Segmenting PflA-2.1A-230911_imasked, density threshold 0.184695 |
| 10470 | | Showing 204 region surfaces |
| 10471 | | 1746 watershed regions, grouped to 204 regions |
| 10472 | | Showing PflA-2.seg - 204 regions, 204 surfaces |
| 10473 | | |
| 10474 | | > hide #!2 models |
| 10475 | | |
| 10476 | | > show #!2 models |
| 10477 | | |
| 10478 | | > hide #!3 models |
| 10479 | | |
| 10480 | | > hide #!4 models |
| 10481 | | |
| 10482 | | Drag select of 2455, 14642 of 20620 triangles, 2589, 9697 of 19436 triangles, |
| 10483 | | 2598, 2618, 2522, 11189 of 11436 triangles, 2606, 7432 of 11344 triangles, |
| 10484 | | 2508, 2519, 2521, 2507, 2125, 3803 of 4348 triangles |
| 10485 | | Grouped 11 regions |
| 10486 | | |
| 10487 | | > select clear |
| 10488 | | |
| 10489 | | > select add #2.165 |
| 10490 | | |
| 10491 | | 1 model selected |
| 10492 | | |
| 10493 | | > select add #2.22 |
| 10494 | | |
| 10495 | | 2 models selected |
| 10496 | | |
| 10497 | | > select add #2.24 |
| 10498 | | |
| 10499 | | 3 models selected |
| 10500 | | |
| 10501 | | > select add #2.78 |
| 10502 | | |
| 10503 | | 4 models selected |
| 10504 | | |
| 10505 | | > select add #2.11 |
| 10506 | | |
| 10507 | | 5 models selected |
| 10508 | | |
| 10509 | | > select add #2.90 |
| 10510 | | |
| 10511 | | 6 models selected |
| 10512 | | |
| 10513 | | > select add #2.170 |
| 10514 | | |
| 10515 | | 7 models selected |
| 10516 | | |
| 10517 | | > select add #2.4 |
| 10518 | | |
| 10519 | | 8 models selected |
| 10520 | | |
| 10521 | | > select add #2.86 |
| 10522 | | |
| 10523 | | 9 models selected |
| 10524 | | |
| 10525 | | > select add #2.3 |
| 10526 | | |
| 10527 | | 10 models selected |
| 10528 | | Grouped 10 regions |
| 10529 | | |
| 10530 | | > select add #2.7 |
| 10531 | | |
| 10532 | | 2 models selected |
| 10533 | | |
| 10534 | | > select subtract #2.7 |
| 10535 | | |
| 10536 | | 1 model selected |
| 10537 | | |
| 10538 | | > select add #2.7 |
| 10539 | | |
| 10540 | | 2 models selected |
| 10541 | | |
| 10542 | | > select add #2.187 |
| 10543 | | |
| 10544 | | 3 models selected |
| 10545 | | Grouped 3 regions |
| 10546 | | |
| 10547 | | > select add #2.115 |
| 10548 | | |
| 10549 | | 2 models selected |
| 10550 | | |
| 10551 | | > select add #2.149 |
| 10552 | | |
| 10553 | | 3 models selected |
| 10554 | | |
| 10555 | | > select clear |
| 10556 | | |
| 10557 | | > select #2.3 |
| 10558 | | |
| 10559 | | 1 model selected |
| 10560 | | Opened PflA-2_imasked as #5, grid size 240,240,240, pixel 2.1, shown at step |
| 10561 | | 1, values float32 |
| 10562 | | Segmenting PflA-2_imasked, density threshold 0.184695 |
| 10563 | | Showing 182 region surfaces |
| 10564 | | 1409 watershed regions, grouped to 182 regions |
| 10565 | | Showing PflA-2_imasked.seg - 182 regions, 182 surfaces |
| 10566 | | |
| 10567 | | > select add #2.151 |
| 10568 | | |
| 10569 | | 1 model selected |
| 10570 | | |
| 10571 | | > select add #2.15 |
| 10572 | | |
| 10573 | | 2 models selected |
| 10574 | | |
| 10575 | | > select add #2.16 |
| 10576 | | |
| 10577 | | 3 models selected |
| 10578 | | |
| 10579 | | > select add #2.161 |
| 10580 | | |
| 10581 | | 4 models selected |
| 10582 | | |
| 10583 | | > select add #2.13 |
| 10584 | | |
| 10585 | | 5 models selected |
| 10586 | | |
| 10587 | | > select add #2.30 |
| 10588 | | |
| 10589 | | 6 models selected |
| 10590 | | |
| 10591 | | > select add #2.38 |
| 10592 | | |
| 10593 | | 7 models selected |
| 10594 | | |
| 10595 | | > select add #2.33 |
| 10596 | | |
| 10597 | | 8 models selected |
| 10598 | | |
| 10599 | | > select add #2.29 |
| 10600 | | |
| 10601 | | 9 models selected |
| 10602 | | |
| 10603 | | > select add #2.40 |
| 10604 | | |
| 10605 | | 10 models selected |
| 10606 | | |
| 10607 | | > select add #2.39 |
| 10608 | | |
| 10609 | | 11 models selected |
| 10610 | | |
| 10611 | | > select add #2.31 |
| 10612 | | |
| 10613 | | 12 models selected |
| 10614 | | |
| 10615 | | > select subtract #2.29 |
| 10616 | | |
| 10617 | | 11 models selected |
| 10618 | | |
| 10619 | | > select add #2.29 |
| 10620 | | |
| 10621 | | 12 models selected |
| 10622 | | |
| 10623 | | > select add #2.106 |
| 10624 | | |
| 10625 | | 13 models selected |
| 10626 | | |
| 10627 | | > select add #2.93 |
| 10628 | | |
| 10629 | | 14 models selected |
| 10630 | | |
| 10631 | | > select add #2.92 |
| 10632 | | |
| 10633 | | 15 models selected |
| 10634 | | |
| 10635 | | > select add #2.77 |
| 10636 | | |
| 10637 | | 16 models selected |
| 10638 | | |
| 10639 | | > select add #2.53 |
| 10640 | | |
| 10641 | | 17 models selected |
| 10642 | | |
| 10643 | | > select add #2.91 |
| 10644 | | |
| 10645 | | 18 models selected |
| 10646 | | |
| 10647 | | > select add #2.66 |
| 10648 | | |
| 10649 | | 19 models selected |
| 10650 | | |
| 10651 | | > select add #2.101 |
| 10652 | | |
| 10653 | | 20 models selected |
| 10654 | | |
| 10655 | | > select add #2.59 |
| 10656 | | |
| 10657 | | 21 models selected |
| 10658 | | |
| 10659 | | > select add #2.42 |
| 10660 | | |
| 10661 | | 22 models selected |
| 10662 | | |
| 10663 | | > select add #2.128 |
| 10664 | | |
| 10665 | | 23 models selected |
| 10666 | | |
| 10667 | | > select add #2.124 |
| 10668 | | |
| 10669 | | 24 models selected |
| 10670 | | |
| 10671 | | > select add #2.109 |
| 10672 | | |
| 10673 | | 25 models selected |
| 10674 | | |
| 10675 | | > select add #2.112 |
| 10676 | | |
| 10677 | | 26 models selected |
| 10678 | | |
| 10679 | | > select add #2.10 |
| 10680 | | |
| 10681 | | 27 models selected |
| 10682 | | |
| 10683 | | > hide #!5 models |
| 10684 | | |
| 10685 | | > select add #2.88 |
| 10686 | | |
| 10687 | | 28 models selected |
| 10688 | | |
| 10689 | | > show #!5 models |
| 10690 | | |
| 10691 | | > select add #2.72 |
| 10692 | | |
| 10693 | | 29 models selected |
| 10694 | | |
| 10695 | | > select add #2.9 |
| 10696 | | |
| 10697 | | 30 models selected |
| 10698 | | |
| 10699 | | > select add #2.27 |
| 10700 | | |
| 10701 | | 31 models selected |
| 10702 | | Grouped 31 regions |
| 10703 | | |
| 10704 | | > select add #2.32 |
| 10705 | | |
| 10706 | | 2 models selected |
| 10707 | | |
| 10708 | | > select add #2.102 |
| 10709 | | |
| 10710 | | 3 models selected |
| 10711 | | |
| 10712 | | > select add #2.62 |
| 10713 | | |
| 10714 | | 4 models selected |
| 10715 | | |
| 10716 | | > select add #2.83 |
| 10717 | | |
| 10718 | | 5 models selected |
| 10719 | | |
| 10720 | | > select add #2.110 |
| 10721 | | |
| 10722 | | 6 models selected |
| 10723 | | |
| 10724 | | > select add #2.105 |
| 10725 | | |
| 10726 | | 7 models selected |
| 10727 | | |
| 10728 | | > select add #2.34 |
| 10729 | | |
| 10730 | | 8 models selected |
| 10731 | | |
| 10732 | | > select add #2.64 |
| 10733 | | |
| 10734 | | 9 models selected |
| 10735 | | |
| 10736 | | > select subtract #2.32 |
| 10737 | | |
| 10738 | | 8 models selected |
| 10739 | | Grouped 8 regions |
| 10740 | | |
| 10741 | | > select add #2.46 |
| 10742 | | |
| 10743 | | 2 models selected |
| 10744 | | |
| 10745 | | > select add #2.26 |
| 10746 | | |
| 10747 | | 3 models selected |
| 10748 | | |
| 10749 | | > select add #2.121 |
| 10750 | | |
| 10751 | | 4 models selected |
| 10752 | | |
| 10753 | | > select add #2.57 |
| 10754 | | |
| 10755 | | 5 models selected |
| 10756 | | |
| 10757 | | > select add #2.24 |
| 10758 | | |
| 10759 | | 6 models selected |
| 10760 | | Grouped 6 regions |
| 10761 | | |
| 10762 | | > select add #2.171 |
| 10763 | | |
| 10764 | | 2 models selected |
| 10765 | | Grouped 2 regions |
| 10766 | | |
| 10767 | | > select add #2.32 |
| 10768 | | |
| 10769 | | 2 models selected |
| 10770 | | Grouped 2 regions |
| 10771 | | |
| 10772 | | > select add #2.107 |
| 10773 | | |
| 10774 | | 2 models selected |
| 10775 | | Grouped 2 regions |
| 10776 | | |
| 10777 | | > select add #2.63 |
| 10778 | | |
| 10779 | | 2 models selected |
| 10780 | | |
| 10781 | | > select add #2.170 |
| 10782 | | |
| 10783 | | 3 models selected |
| 10784 | | |
| 10785 | | > select add #2.117 |
| 10786 | | |
| 10787 | | 4 models selected |
| 10788 | | |
| 10789 | | > select add #2.139 |
| 10790 | | |
| 10791 | | 5 models selected |
| 10792 | | |
| 10793 | | > select add #2.179 |
| 10794 | | |
| 10795 | | 6 models selected |
| 10796 | | |
| 10797 | | > select add #2.61 |
| 10798 | | |
| 10799 | | 7 models selected |
| 10800 | | |
| 10801 | | > select subtract #2.139 |
| 10802 | | |
| 10803 | | 6 models selected |
| 10804 | | |
| 10805 | | > select add #2.139 |
| 10806 | | |
| 10807 | | 7 models selected |
| 10808 | | Grouped 7 regions |
| 10809 | | |
| 10810 | | > select clear |
| 10811 | | |
| 10812 | | > select #2.9 |
| 10813 | | |
| 10814 | | 1 model selected |
| 10815 | | |
| 10816 | | > hide #!5 models |
| 10817 | | |
| 10818 | | > show #!1 models |
| 10819 | | |
| 10820 | | > hide #!1 models |
| 10821 | | |
| 10822 | | > select clear |
| 10823 | | |
| 10824 | | [Repeated 1 time(s)] |
| 10825 | | |
| 10826 | | > select #2.9 |
| 10827 | | |
| 10828 | | 1 model selected |
| 10829 | | Opened PflA-2_imasked_imasked as #6, grid size 240,240,240, pixel 2.1, shown |
| 10830 | | at step 1, values float32 |
| 10831 | | |
| 10832 | | > save /Volumes/Backup-95/Chimera-2023/PflB-PflA-project/Start- |
| 10833 | | > from_June2024/July_2024/Final- |
| 10834 | | > version_model/Flo_PflA_Local/Segment_July_26/3Xunits.mrc models #6 |
| 10835 | | |
| 10836 | | Opened PflA-2_imasked_imasked as #7, grid size 240,240,240, pixel 2.1, shown |
| 10837 | | at step 1, values float32 |
| 10838 | | Segmenting PflA-2_imasked_imasked, density threshold 0.184695 |
| 10839 | | Showing 130 region surfaces |
| 10840 | | 1128 watershed regions, grouped to 130 regions |
| 10841 | | Showing PflA-2_imasked_imasked.seg - 130 regions, 130 surfaces |
| 10842 | | |
| 10843 | | > hide #!6 models |
| 10844 | | |
| 10845 | | > hide #!7 models |
| 10846 | | |
| 10847 | | > select #2.50 |
| 10848 | | |
| 10849 | | 1 model selected |
| 10850 | | |
| 10851 | | > select add #2.16 |
| 10852 | | |
| 10853 | | 2 models selected |
| 10854 | | |
| 10855 | | > select add #2.85 |
| 10856 | | |
| 10857 | | 3 models selected |
| 10858 | | |
| 10859 | | > select add #2.103 |
| 10860 | | |
| 10861 | | 4 models selected |
| 10862 | | |
| 10863 | | > select add #2.24 |
| 10864 | | |
| 10865 | | 5 models selected |
| 10866 | | |
| 10867 | | > select add #2.15 |
| 10868 | | |
| 10869 | | 6 models selected |
| 10870 | | |
| 10871 | | > select add #2.12 |
| 10872 | | |
| 10873 | | 7 models selected |
| 10874 | | |
| 10875 | | > select add #2.88 |
| 10876 | | |
| 10877 | | 8 models selected |
| 10878 | | |
| 10879 | | > select add #2.67 |
| 10880 | | |
| 10881 | | 9 models selected |
| 10882 | | |
| 10883 | | > show #!6 models |
| 10884 | | |
| 10885 | | > close #6-7 |
| 10886 | | |
| 10887 | | Segmenting PflA-2_imasked, density threshold 0.184695 |
| 10888 | | Showing 182 region surfaces |
| 10889 | | 1409 watershed regions, grouped to 182 regions |
| 10890 | | Showing PflA-2_imasked.seg - 182 regions, 182 surfaces |
| 10891 | | |
| 10892 | | > select add #2.16 |
| 10893 | | |
| 10894 | | 1 model selected |
| 10895 | | |
| 10896 | | > select add #2.161 |
| 10897 | | |
| 10898 | | 2 models selected |
| 10899 | | |
| 10900 | | > select add #2.15 |
| 10901 | | |
| 10902 | | 3 models selected |
| 10903 | | |
| 10904 | | > select add #2.151 |
| 10905 | | |
| 10906 | | 4 models selected |
| 10907 | | |
| 10908 | | > select add #2.57 |
| 10909 | | |
| 10910 | | 5 models selected |
| 10911 | | |
| 10912 | | > select add #2.121 |
| 10913 | | |
| 10914 | | 6 models selected |
| 10915 | | |
| 10916 | | > select add #2.171 |
| 10917 | | |
| 10918 | | 7 models selected |
| 10919 | | |
| 10920 | | > select add #2.24 |
| 10921 | | |
| 10922 | | 8 models selected |
| 10923 | | |
| 10924 | | > select add #2.26 |
| 10925 | | |
| 10926 | | 9 models selected |
| 10927 | | |
| 10928 | | > select add #2.30 |
| 10929 | | |
| 10930 | | 10 models selected |
| 10931 | | |
| 10932 | | > select add #2.13 |
| 10933 | | |
| 10934 | | 11 models selected |
| 10935 | | Grouped 11 regions |
| 10936 | | |
| 10937 | | > select add #2.32 |
| 10938 | | |
| 10939 | | 2 models selected |
| 10940 | | |
| 10941 | | > select add #2.102 |
| 10942 | | |
| 10943 | | 3 models selected |
| 10944 | | |
| 10945 | | > select add #2.28 |
| 10946 | | |
| 10947 | | 4 models selected |
| 10948 | | |
| 10949 | | > select add #2.106 |
| 10950 | | |
| 10951 | | 5 models selected |
| 10952 | | |
| 10953 | | > select add #2.77 |
| 10954 | | |
| 10955 | | 6 models selected |
| 10956 | | |
| 10957 | | > select add #2.53 |
| 10958 | | |
| 10959 | | 7 models selected |
| 10960 | | |
| 10961 | | > select add #2.33 |
| 10962 | | |
| 10963 | | 8 models selected |
| 10964 | | |
| 10965 | | > select add #2.38 |
| 10966 | | |
| 10967 | | 9 models selected |
| 10968 | | |
| 10969 | | > select subtract #2.102 |
| 10970 | | |
| 10971 | | 8 models selected |
| 10972 | | |
| 10973 | | > select add #2.102 |
| 10974 | | |
| 10975 | | 9 models selected |
| 10976 | | |
| 10977 | | > select add #2.62 |
| 10978 | | |
| 10979 | | 10 models selected |
| 10980 | | |
| 10981 | | > select add #2.83 |
| 10982 | | |
| 10983 | | 11 models selected |
| 10984 | | |
| 10985 | | > select add #2.34 |
| 10986 | | |
| 10987 | | 12 models selected |
| 10988 | | Grouped 12 regions |
| 10989 | | |
| 10990 | | > select add #2.46 |
| 10991 | | |
| 10992 | | 2 models selected |
| 10993 | | |
| 10994 | | > select add #2.64 |
| 10995 | | |
| 10996 | | 3 models selected |
| 10997 | | |
| 10998 | | > select add #2.70 |
| 10999 | | |
| 11000 | | 4 models selected |
| 11001 | | |
| 11002 | | > select add #2.110 |
| 11003 | | |
| 11004 | | 5 models selected |
| 11005 | | |
| 11006 | | > select add #2.105 |
| 11007 | | |
| 11008 | | 6 models selected |
| 11009 | | |
| 11010 | | > select add #2.112 |
| 11011 | | |
| 11012 | | 7 models selected |
| 11013 | | |
| 11014 | | > select add #2.163 |
| 11015 | | |
| 11016 | | 8 models selected |
| 11017 | | |
| 11018 | | > select add #2.101 |
| 11019 | | |
| 11020 | | 9 models selected |
| 11021 | | |
| 11022 | | > select add #2.109 |
| 11023 | | |
| 11024 | | 10 models selected |
| 11025 | | |
| 11026 | | > select add #2.66 |
| 11027 | | |
| 11028 | | 11 models selected |
| 11029 | | |
| 11030 | | > select add #2.124 |
| 11031 | | |
| 11032 | | 12 models selected |
| 11033 | | |
| 11034 | | > select add #2.91 |
| 11035 | | |
| 11036 | | 13 models selected |
| 11037 | | |
| 11038 | | > select add #2.128 |
| 11039 | | |
| 11040 | | 14 models selected |
| 11041 | | Grouped 14 regions |
| 11042 | | |
| 11043 | | > select add #2.39 |
| 11044 | | |
| 11045 | | 2 models selected |
| 11046 | | |
| 11047 | | > select add #2.42 |
| 11048 | | |
| 11049 | | 3 models selected |
| 11050 | | |
| 11051 | | > select add #2.92 |
| 11052 | | |
| 11053 | | 4 models selected |
| 11054 | | |
| 11055 | | > select add #2.93 |
| 11056 | | |
| 11057 | | 5 models selected |
| 11058 | | |
| 11059 | | > select add #2.31 |
| 11060 | | |
| 11061 | | 6 models selected |
| 11062 | | |
| 11063 | | > select add #2.40 |
| 11064 | | |
| 11065 | | 7 models selected |
| 11066 | | Grouped 7 regions |
| 11067 | | |
| 11068 | | > select add #2.9 |
| 11069 | | |
| 11070 | | 2 models selected |
| 11071 | | |
| 11072 | | > select add #2.72 |
| 11073 | | |
| 11074 | | 3 models selected |
| 11075 | | |
| 11076 | | > select add #2.59 |
| 11077 | | |
| 11078 | | 4 models selected |
| 11079 | | |
| 11080 | | > select add #2.10 |
| 11081 | | |
| 11082 | | 5 models selected |
| 11083 | | |
| 11084 | | > select add #2.88 |
| 11085 | | |
| 11086 | | 6 models selected |
| 11087 | | |
| 11088 | | > select add #2.27 |
| 11089 | | |
| 11090 | | 7 models selected |
| 11091 | | Grouped 7 regions |
| 11092 | | |
| 11093 | | > select #2.18 |
| 11094 | | |
| 11095 | | 1 model selected |
| 11096 | | Ungrouped to 5 regions |
| 11097 | | |
| 11098 | | > select clear |
| 11099 | | |
| 11100 | | > select #2.10 |
| 11101 | | |
| 11102 | | 1 model selected |
| 11103 | | |
| 11104 | | > select add #2.13 |
| 11105 | | |
| 11106 | | 2 models selected |
| 11107 | | |
| 11108 | | > select add #2.24 |
| 11109 | | |
| 11110 | | 3 models selected |
| 11111 | | |
| 11112 | | > select subtract #2.24 |
| 11113 | | |
| 11114 | | 2 models selected |
| 11115 | | Grouped 2 regions |
| 11116 | | |
| 11117 | | > select add #2.9 |
| 11118 | | |
| 11119 | | 2 models selected |
| 11120 | | Grouped 2 regions |
| 11121 | | |
| 11122 | | > select clear |
| 11123 | | |
| 11124 | | > select #2.9 |
| 11125 | | |
| 11126 | | 1 model selected |
| 11127 | | |
| 11128 | | > select add #2.107 |
| 11129 | | |
| 11130 | | 2 models selected |
| 11131 | | Grouped 2 regions |
| 11132 | | Ungrouped to 2 regions |
| 11133 | | |
| 11134 | | > select clear |
| 11135 | | |
| 11136 | | > select #2.10 |
| 11137 | | |
| 11138 | | 1 model selected |
| 11139 | | Ungrouped to 2 regions |
| 11140 | | Ungrouped to 9 regions |
| 11141 | | Ungrouped to 21 regions |
| 11142 | | Ungrouped to 63 regions |
| 11143 | | |
| 11144 | | > select subtract #2.105 |
| 11145 | | |
| 11146 | | 62 models selected |
| 11147 | | |
| 11148 | | > select add #2.117 |
| 11149 | | |
| 11150 | | 63 models selected |
| 11151 | | |
| 11152 | | > select add #2.170 |
| 11153 | | |
| 11154 | | 64 models selected |
| 11155 | | |
| 11156 | | > select add #2.179 |
| 11157 | | |
| 11158 | | 65 models selected |
| 11159 | | |
| 11160 | | > select add #2.139 |
| 11161 | | |
| 11162 | | 66 models selected |
| 11163 | | Grouped 66 regions |
| 11164 | | |
| 11165 | | > select add #2.38 |
| 11166 | | |
| 11167 | | 2 models selected |
| 11168 | | Grouped 2 regions |
| 11169 | | |
| 11170 | | > select add #2.13 |
| 11171 | | |
| 11172 | | 2 models selected |
| 11173 | | Grouped 2 regions |
| 11174 | | |
| 11175 | | > select add #2.33 |
| 11176 | | |
| 11177 | | 2 models selected |
| 11178 | | |
| 11179 | | > select add #2.34 |
| 11180 | | |
| 11181 | | 3 models selected |
| 11182 | | |
| 11183 | | > select add #2.46 |
| 11184 | | |
| 11185 | | 4 models selected |
| 11186 | | |
| 11187 | | > select add #2.40 |
| 11188 | | |
| 11189 | | 5 models selected |
| 11190 | | Grouped 5 regions |
| 11191 | | Opened PflA-2_imasked_imasked as #6, grid size 240,240,240, pixel 2.1, shown |
| 11192 | | at step 1, values float32 |
| 11193 | | |
| 11194 | | > save /Volumes/Backup-95/Chimera-2023/PflB-PflA-project/Start- |
| 11195 | | > from_June2024/July_2024/Final- |
| 11196 | | > version_model/Flo_PflA_Local/Segment_July_26/3Xunits.mrc models #6 |
| 11197 | | |
| 11198 | | Opened PflA-2_imasked_imasked as #7, grid size 240,240,240, pixel 2.1, shown |
| 11199 | | at step 1, values float32 |
| 11200 | | Segmenting PflA-2_imasked_imasked, density threshold 0.184695 |
| 11201 | | Showing 130 region surfaces |
| 11202 | | 1144 watershed regions, grouped to 130 regions |
| 11203 | | Showing PflA-2_imasked_imasked.seg - 130 regions, 130 surfaces |
| 11204 | | |
| 11205 | | > hide #!6 models |
| 11206 | | |
| 11207 | | > select #2.68 |
| 11208 | | |
| 11209 | | 1 model selected |
| 11210 | | |
| 11211 | | > select add #2.89 |
| 11212 | | |
| 11213 | | 2 models selected |
| 11214 | | |
| 11215 | | > select add #2.12 |
| 11216 | | |
| 11217 | | 3 models selected |
| 11218 | | |
| 11219 | | > select add #2.24 |
| 11220 | | |
| 11221 | | 4 models selected |
| 11222 | | |
| 11223 | | > select add #2.14 |
| 11224 | | |
| 11225 | | 5 models selected |
| 11226 | | |
| 11227 | | > select add #2.103 |
| 11228 | | |
| 11229 | | 6 models selected |
| 11230 | | |
| 11231 | | > select add #2.51 |
| 11232 | | |
| 11233 | | 7 models selected |
| 11234 | | |
| 11235 | | > select add #2.15 |
| 11236 | | |
| 11237 | | 8 models selected |
| 11238 | | |
| 11239 | | > select add #2.86 |
| 11240 | | |
| 11241 | | 9 models selected |
| 11242 | | Grouped 9 regions |
| 11243 | | Opened PflA-2_imasked_imasked_imasked as #8, grid size 240,240,240, pixel 2.1, |
| 11244 | | shown at step 1, values float32 |
| 11245 | | |
| 11246 | | > save /Volumes/Backup-95/Chimera-2023/PflB-PflA-project/Start- |
| 11247 | | > from_June2024/July_2024/Final- |
| 11248 | | > version_model/Flo_PflA_Local/Segment_July_26/3XfliL.mrc models #8 |
| 11249 | | |
| 11250 | | Opened PflA-2_imasked_imasked_imasked as #9, grid size 240,240,240, pixel 2.1, |
| 11251 | | shown at step 1, values float32 |
| 11252 | | Segmenting PflA-2_imasked_imasked_imasked, density threshold 0.184695 |
| 11253 | | Showing 121 region surfaces |
| 11254 | | 1088 watershed regions, grouped to 121 regions |
| 11255 | | Showing PflA-2_imasked_imasked_imasked.seg - 121 regions, 121 surfaces |
| 11256 | | |
| 11257 | | > hide #!7 models |
| 11258 | | |
| 11259 | | > hide #!8 models |
| 11260 | | |
| 11261 | | > select #2.8 |
| 11262 | | |
| 11263 | | 1 model selected |
| 11264 | | |
| 11265 | | > select add #2.71 |
| 11266 | | |
| 11267 | | 2 models selected |
| 11268 | | |
| 11269 | | > select add #2.44 |
| 11270 | | |
| 11271 | | 3 models selected |
| 11272 | | |
| 11273 | | > select add #2.27 |
| 11274 | | |
| 11275 | | 4 models selected |
| 11276 | | |
| 11277 | | > select add #2.76 |
| 11278 | | |
| 11279 | | 5 models selected |
| 11280 | | |
| 11281 | | > select add #2.63 |
| 11282 | | |
| 11283 | | 6 models selected |
| 11284 | | |
| 11285 | | > select add #2.92 |
| 11286 | | |
| 11287 | | 7 models selected |
| 11288 | | |
| 11289 | | > select add #2.17 |
| 11290 | | |
| 11291 | | 8 models selected |
| 11292 | | |
| 11293 | | > select add #2.110 |
| 11294 | | |
| 11295 | | 9 models selected |
| 11296 | | |
| 11297 | | > select add #2.90 |
| 11298 | | |
| 11299 | | 10 models selected |
| 11300 | | |
| 11301 | | > select add #2.117 |
| 11302 | | |
| 11303 | | 11 models selected |
| 11304 | | |
| 11305 | | > select add #2.56 |
| 11306 | | |
| 11307 | | 12 models selected |
| 11308 | | |
| 11309 | | > select add #2.4 |
| 11310 | | |
| 11311 | | 13 models selected |
| 11312 | | |
| 11313 | | > select add #2.14 |
| 11314 | | |
| 11315 | | 14 models selected |
| 11316 | | |
| 11317 | | > select add #2.55 |
| 11318 | | |
| 11319 | | 15 models selected |
| 11320 | | |
| 11321 | | > select add #2.98 |
| 11322 | | |
| 11323 | | 16 models selected |
| 11324 | | |
| 11325 | | > select add #2.6 |
| 11326 | | |
| 11327 | | 17 models selected |
| 11328 | | |
| 11329 | | > select add #2.49 |
| 11330 | | |
| 11331 | | 18 models selected |
| 11332 | | |
| 11333 | | > select add #2.79 |
| 11334 | | |
| 11335 | | 19 models selected |
| 11336 | | |
| 11337 | | > select add #2.105 |
| 11338 | | |
| 11339 | | 20 models selected |
| 11340 | | |
| 11341 | | > select add #2.99 |
| 11342 | | |
| 11343 | | 21 models selected |
| 11344 | | |
| 11345 | | > select add #2.78 |
| 11346 | | |
| 11347 | | 22 models selected |
| 11348 | | |
| 11349 | | > select add #2.41 |
| 11350 | | |
| 11351 | | 23 models selected |
| 11352 | | |
| 11353 | | > select add #2.72 |
| 11354 | | |
| 11355 | | 24 models selected |
| 11356 | | |
| 11357 | | > select add #2.58 |
| 11358 | | |
| 11359 | | 25 models selected |
| 11360 | | |
| 11361 | | > select add #2.5 |
| 11362 | | |
| 11363 | | 26 models selected |
| 11364 | | |
| 11365 | | > select add #2.33 |
| 11366 | | |
| 11367 | | 27 models selected |
| 11368 | | |
| 11369 | | > select subtract #2.33 |
| 11370 | | |
| 11371 | | 26 models selected |
| 11372 | | |
| 11373 | | > select add #2.33 |
| 11374 | | |
| 11375 | | 27 models selected |
| 11376 | | |
| 11377 | | > select add #2.112 |
| 11378 | | |
| 11379 | | 28 models selected |
| 11380 | | |
| 11381 | | > select add #2.73 |
| 11382 | | |
| 11383 | | 29 models selected |
| 11384 | | |
| 11385 | | > select add #2.57 |
| 11386 | | |
| 11387 | | 30 models selected |
| 11388 | | |
| 11389 | | > select add #2.10 |
| 11390 | | |
| 11391 | | 31 models selected |
| 11392 | | |
| 11393 | | > select subtract #2.5 |
| 11394 | | |
| 11395 | | 30 models selected |
| 11396 | | |
| 11397 | | > select add #2.5 |
| 11398 | | |
| 11399 | | 31 models selected |
| 11400 | | Grouped 31 regions |
| 11401 | | |
| 11402 | | > select add #2.106 |
| 11403 | | |
| 11404 | | 2 models selected |
| 11405 | | Grouped 2 regions |
| 11406 | | |
| 11407 | | > hide #!9 models |
| 11408 | | |
| 11409 | | > select add #2.1 |
| 11410 | | |
| 11411 | | 2 models selected |
| 11412 | | |
| 11413 | | > select add #2.3 |
| 11414 | | |
| 11415 | | 3 models selected |
| 11416 | | |
| 11417 | | > select add #2.2 |
| 11418 | | |
| 11419 | | 4 models selected |
| 11420 | | |
| 11421 | | > select add #2.114 |
| 11422 | | |
| 11423 | | 5 models selected |
| 11424 | | |
| 11425 | | > select add #2.115 |
| 11426 | | |
| 11427 | | 6 models selected |
| 11428 | | |
| 11429 | | > select add #2.65 |
| 11430 | | |
| 11431 | | 7 models selected |
| 11432 | | |
| 11433 | | > select add #2.28 |
| 11434 | | |
| 11435 | | 8 models selected |
| 11436 | | |
| 11437 | | > select add #2.88 |
| 11438 | | |
| 11439 | | 9 models selected |
| 11440 | | |
| 11441 | | > select add #2.68 |
| 11442 | | |
| 11443 | | 10 models selected |
| 11444 | | |
| 11445 | | > select add #2.22 |
| 11446 | | |
| 11447 | | 11 models selected |
| 11448 | | |
| 11449 | | > select add #2.43 |
| 11450 | | |
| 11451 | | 12 models selected |
| 11452 | | |
| 11453 | | > select add #2.94 |
| 11454 | | |
| 11455 | | 13 models selected |
| 11456 | | |
| 11457 | | > select add #2.29 |
| 11458 | | |
| 11459 | | 14 models selected |
| 11460 | | |
| 11461 | | > select add #2.38 |
| 11462 | | |
| 11463 | | 15 models selected |
| 11464 | | |
| 11465 | | > select add #2.64 |
| 11466 | | |
| 11467 | | 16 models selected |
| 11468 | | |
| 11469 | | > select add #2.39 |
| 11470 | | |
| 11471 | | 17 models selected |
| 11472 | | |
| 11473 | | > select add #2.100 |
| 11474 | | |
| 11475 | | 18 models selected |
| 11476 | | |
| 11477 | | > select add #2.59 |
| 11478 | | |
| 11479 | | 19 models selected |
| 11480 | | |
| 11481 | | > select add #2.12 |
| 11482 | | |
| 11483 | | 20 models selected |
| 11484 | | |
| 11485 | | > select add #2.66 |
| 11486 | | |
| 11487 | | 21 models selected |
| 11488 | | |
| 11489 | | > select add #2.34 |
| 11490 | | |
| 11491 | | 22 models selected |
| 11492 | | Grouped 22 regions |
| 11493 | | |
| 11494 | | > select add #2.93 |
| 11495 | | |
| 11496 | | 2 models selected |
| 11497 | | |
| 11498 | | > select add #2.107 |
| 11499 | | |
| 11500 | | 3 models selected |
| 11501 | | Grouped 3 regions |
| 11502 | | |
| 11503 | | > select clear |
| 11504 | | |
| 11505 | | > select #2.1 |
| 11506 | | |
| 11507 | | 1 model selected |
| 11508 | | Opened PflA-2_imasked_imasked_imasked_imasked as #10, grid size 240,240,240, |
| 11509 | | pixel 2.1, shown at step 1, values float32 |
| 11510 | | |
| 11511 | | > save /Volumes/Backup-95/Chimera-2023/PflB-PflA-project/Start- |
| 11512 | | > from_June2024/July_2024/Final- |
| 11513 | | > version_model/Flo_PflA_Local/Segment_July_26/IM.mrc models #10 |
| 11514 | | |
| 11515 | | Opened PflA-2_imasked_imasked_imasked_imasked as #11, grid size 240,240,240, |
| 11516 | | pixel 2.1, shown at step 1, values float32 |
| 11517 | | Segmenting 3Xunits.mrc, density threshold 0.184695 |
| 11518 | | Showing 52 region surfaces |
| 11519 | | 265 watershed regions, grouped to 52 regions |
| 11520 | | Showing 3Xunits.seg - 52 regions, 52 surfaces |
| 11521 | | |
| 11522 | | > hide #!10 models |
| 11523 | | |
| 11524 | | > hide #!2 models |
| 11525 | | |
| 11526 | | > hide #!11 models |
| 11527 | | |
| 11528 | | > show #!6 models |
| 11529 | | |
| 11530 | | > open /Volumes/Backup-95/Chimera-2023/PflB-PflA-project/Start- |
| 11531 | | > from_June2024/July_2024/Final-version_model/Flo_PflA_Local/New_PflA.pdb |
| 11532 | | |
| 11533 | | Summary of feedback from opening /Volumes/Backup-95/Chimera-2023/PflB-PflA- |
| 11534 | | project/Start-from_June2024/July_2024/Final- |
| 11535 | | version_model/Flo_PflA_Local/New_PflA.pdb |
| 11536 | | --- |
| 11537 | | warnings | Start residue of secondary structure not found: HELIX 1 1 GLY A 2 LEU A 78 1 77 |
| 11538 | | Start residue of secondary structure not found: HELIX 2 2 LEU A 79 ILE A 81 1 |
| 11539 | | 3 |
| 11540 | | Start residue of secondary structure not found: HELIX 3 3 LYS A 107 LEU A 118 |
| 11541 | | 1 12 |
| 11542 | | Start residue of secondary structure not found: HELIX 4 4 ASN A 119 MET A 121 |
| 11543 | | 1 3 |
| 11544 | | Start residue of secondary structure not found: HELIX 5 5 GLU A 154 ILE A 156 |
| 11545 | | 1 3 |
| 11546 | | 679 messages similar to the above omitted |
| 11547 | | |
| 11548 | | Chain information for New_PflA.pdb |
| 11549 | | --- |
| 11550 | | Chain | Description |
| 11551 | | 12.1/A0 12.2/A2 12.3/A4 12.4/A6 12.5/A8 12.6/At 12.7/Av 12.8/Ax 12.9/Az 12.10/BB 12.11/BD 12.12/BF 12.13/BH 12.14/BJ 12.15/BL 12.16/BN 12.17/BP 12.18/BR | No description available |
| 11552 | | 12.19/CK 12.20/CM 12.21/CO 12.22/CQ 12.23/CS 12.24/CU 12.25/CW 12.26/CY 12.27/Ca 12.28/Cc 12.29/Ce 12.30/Cg 12.31/Ci 12.32/Ck 12.33/Cm 12.34/Co 12.35/Cq 12.36/Cs | No description available |
| 11553 | | |
| 11554 | | |
| 11555 | | > select add #12 |
| 11556 | | |
| 11557 | | 109872 atoms, 112014 bonds, 72 pseudobonds, 13482 residues, 55 models selected |
| 11558 | | |
| 11559 | | > ui mousemode right "translate selected models" |
| 11560 | | |
| 11561 | | > view matrix models #12,1,0,0,-691.77,0,1,0,-586.46,0,0,1,-473.7 |
| 11562 | | |
| 11563 | | > view matrix models #12,1,0,0,-747.48,0,1,0,-578.05,0,0,1,-528.69 |
| 11564 | | |
| 11565 | | > view matrix models #12,1,0,0,-765.74,0,1,0,-634.57,0,0,1,-507.8 |
| 11566 | | |
| 11567 | | > ui mousemode right "rotate selected models" |
| 11568 | | |
| 11569 | | > view matrix models |
| 11570 | | > #12,0.93968,-0.34172,0.015266,-557.95,0.3415,0.93976,0.015284,-792.76,-0.019569,-0.0091485,0.99977,-492.31 |
| 11571 | | |
| 11572 | | > hide #!6 models |
| 11573 | | |
| 11574 | | > show #!6 models |
| 11575 | | |
| 11576 | | > view matrix models |
| 11577 | | > #12,0.93938,-0.34184,-0.02662,-536.73,0.34264,0.93876,0.036376,-803.4,0.012555,-0.043292,0.99898,-490.81 |
| 11578 | | |
| 11579 | | > view matrix models |
| 11580 | | > #12,0.93488,-0.35397,-0.026433,-527.92,0.35476,0.93425,0.036495,-807.52,0.011777,-0.043496,0.99898,-490.28 |
| 11581 | | |
| 11582 | | > hide #!6 models |
| 11583 | | |
| 11584 | | > show #!6 models |
| 11585 | | |
| 11586 | | > hide #!6 models |
| 11587 | | |
| 11588 | | > select clear |
| 11589 | | |
| 11590 | | > show #!6 models |
| 11591 | | |
| 11592 | | > hide #!6 models |
| 11593 | | |
| 11594 | | > show #!6 models |
| 11595 | | |
| 11596 | | > hide #!6 models |
| 11597 | | |
| 11598 | | > show #!6 models |
| 11599 | | |
| 11600 | | > hide #!6 models |
| 11601 | | |
| 11602 | | > show #!6 models |
| 11603 | | |
| 11604 | | > hide #!6 models |
| 11605 | | |
| 11606 | | Drag select of 2113 residues |
| 11607 | | |
| 11608 | | > select add #12.20 |
| 11609 | | |
| 11610 | | 17231 atoms, 1136 bonds, 2113 residues, 6 models selected |
| 11611 | | |
| 11612 | | > select add #12.19 |
| 11613 | | |
| 11614 | | 17231 atoms, 2272 bonds, 2113 residues, 6 models selected |
| 11615 | | |
| 11616 | | > select add #12.18 |
| 11617 | | |
| 11618 | | 17231 atoms, 7359 bonds, 4 pseudobonds, 2113 residues, 7 models selected |
| 11619 | | |
| 11620 | | > select add #12.6 |
| 11621 | | |
| 11622 | | 17231 atoms, 12446 bonds, 8 pseudobonds, 2113 residues, 8 models selected |
| 11623 | | |
| 11624 | | > select add #12.4 |
| 11625 | | |
| 11626 | | 22198 atoms, 17533 bonds, 12 pseudobonds, 2722 residues, 9 models selected |
| 11627 | | |
| 11628 | | > select subtract #12.4 |
| 11629 | | |
| 11630 | | 17203 atoms, 12446 bonds, 8 pseudobonds, 2110 residues, 7 models selected |
| 11631 | | |
| 11632 | | > select add #12.3 |
| 11633 | | |
| 11634 | | 17203 atoms, 17533 bonds, 12 pseudobonds, 2110 residues, 8 models selected |
| 11635 | | Drag select of 137 residues |
| 11636 | | |
| 11637 | | > select add #12.21 |
| 11638 | | |
| 11639 | | 18312 atoms, 18669 bonds, 12 pseudobonds, 2247 residues, 9 models selected |
| 11640 | | |
| 11641 | | > save /Volumes/Backup-95/Chimera-2023/PflB-PflA-project/Start- |
| 11642 | | > from_June2024/July_2024/Final- |
| 11643 | | > version_model/Flo_PflA_Local/3XPflA_For_Figure.pdb selectedOnly true |
| 11644 | | |
| 11645 | | > select add #12 |
| 11646 | | |
| 11647 | | 109872 atoms, 112014 bonds, 72 pseudobonds, 13482 residues, 55 models selected |
| 11648 | | |
| 11649 | | > select subtract #12 |
| 11650 | | |
| 11651 | | Nothing selected |
| 11652 | | |
| 11653 | | > hide #!12 models |
| 11654 | | |
| 11655 | | > show #!6 models |
| 11656 | | |
| 11657 | | > open /Volumes/Backup-95/Chimera-2023/PflB-PflA-project/Start- |
| 11658 | | > from_June2024/July_2024/Final-version_model/Flo_PflA_Local/New_PflB.pdb |
| 11659 | | |
| 11660 | | Summary of feedback from opening /Volumes/Backup-95/Chimera-2023/PflB-PflA- |
| 11661 | | project/Start-from_June2024/July_2024/Final- |
| 11662 | | version_model/Flo_PflA_Local/New_PflB.pdb |
| 11663 | | --- |
| 11664 | | warnings | Start residue of secondary structure not found: HELIX 1 1 GLY A 2 LEU A 78 1 77 |
| 11665 | | Start residue of secondary structure not found: HELIX 2 2 LEU A 79 ILE A 81 1 |
| 11666 | | 3 |
| 11667 | | Start residue of secondary structure not found: HELIX 3 3 LYS A 107 LEU A 118 |
| 11668 | | 1 12 |
| 11669 | | Start residue of secondary structure not found: HELIX 4 4 ASN A 119 MET A 121 |
| 11670 | | 1 3 |
| 11671 | | Start residue of secondary structure not found: HELIX 5 5 GLU A 154 ILE A 156 |
| 11672 | | 1 3 |
| 11673 | | 337 messages similar to the above omitted |
| 11674 | | |
| 11675 | | Chain information for New_PflB.pdb |
| 11676 | | --- |
| 11677 | | Chain | Description |
| 11678 | | 13.1/CJ 13.2/CL 13.3/CN 13.4/CP 13.5/CR 13.6/CT 13.7/CV 13.8/CX 13.9/CZ 13.10/Cb 13.11/Cd 13.12/Cf 13.13/Ch 13.14/Cj 13.15/Cl 13.16/Cn 13.17/Cp 13.18/Cr | No description available |
| 11679 | | |
| 11680 | | |
| 11681 | | > select add #13 |
| 11682 | | |
| 11683 | | 122922 atoms, 125496 bonds, 15174 residues, 19 models selected |
| 11684 | | |
| 11685 | | > ui mousemode right "translate selected models" |
| 11686 | | |
| 11687 | | > view matrix models #13,1,0,0,-890.52,0,1,0,-614.02,0,0,1,-0.53894 |
| 11688 | | |
| 11689 | | > view matrix models #13,1,0,0,-828.91,0,1,0,-519.77,0,0,1,-541.34 |
| 11690 | | |
| 11691 | | > color #6 #b2b2b27d models |
| 11692 | | |
| 11693 | | > view matrix models #13,1,0,0,-799.1,0,1,0,-520.23,0,0,1,-537.82 |
| 11694 | | |
| 11695 | | > view matrix models #13,1,0,0,-798.64,0,1,0,-493.13,0,0,1,-531.94 |
| 11696 | | |
| 11697 | | > view matrix models #13,1,0,0,-797.26,0,1,0,-484.01,0,0,1,-531.99 |
| 11698 | | |
| 11699 | | > view matrix models #13,1,0,0,-803.83,0,1,0,-489.12,0,0,1,-536.9 |
| 11700 | | |
| 11701 | | > view matrix models #13,1,0,0,-804.61,0,1,0,-487.3,0,0,1,-536.07 |
| 11702 | | |
| 11703 | | > view matrix models #13,1,0,0,-805.15,0,1,0,-486.78,0,0,1,-536.22 |
| 11704 | | |
| 11705 | | > view matrix models #13,1,0,0,-806.6,0,1,0,-486.23,0,0,1,-536.41 |
| 11706 | | |
| 11707 | | > view matrix models #13,1,0,0,-806.63,0,1,0,-485.73,0,0,1,-536.5 |
| 11708 | | |
| 11709 | | > open /Volumes/Backup-95/Chimera-2023/PflB-PflA-project/Start- |
| 11710 | | > from_June2024/July_2024/Final- |
| 11711 | | > version_model/Flo_PflA_Local/3XPflA_For_Figure.pdb |
| 11712 | | |
| 11713 | | Summary of feedback from opening /Volumes/Backup-95/Chimera-2023/PflB-PflA- |
| 11714 | | project/Start-from_June2024/July_2024/Final- |
| 11715 | | version_model/Flo_PflA_Local/3XPflA_For_Figure.pdb |
| 11716 | | --- |
| 11717 | | warnings | Start residue of secondary structure not found: HELIX 1 1 TYRA0 183 ASPA0 196 1 14 |
| 11718 | | Start residue of secondary structure not found: HELIX 2 2 TYRA0 200 ASNA0 213 |
| 11719 | | 1 14 |
| 11720 | | Start residue of secondary structure not found: HELIX 3 3 LYSA0 220 LEUA0 234 |
| 11721 | | 1 15 |
| 11722 | | Start residue of secondary structure not found: HELIX 4 4 LYSA0 238 ASNA0 251 |
| 11723 | | 1 14 |
| 11724 | | Start residue of secondary structure not found: HELIX 5 5 ILEA0 258 GLUA0 271 |
| 11725 | | 1 14 |
| 11726 | | 247 messages similar to the above omitted |
| 11727 | | |
| 11728 | | Chain information for 3XPflA_For_Figure.pdb |
| 11729 | | --- |
| 11730 | | Chain | Description |
| 11731 | | 14.1/A4 14.2/At 14.3/BR | No description available |
| 11732 | | 14.4/CK 14.5/CM 14.6/CO | No description available |
| 11733 | | |
| 11734 | | |
| 11735 | | > select subtract #13 |
| 11736 | | |
| 11737 | | Nothing selected |
| 11738 | | |
| 11739 | | > select add #13.1 |
| 11740 | | |
| 11741 | | 6829 atoms, 6972 bonds, 843 residues, 1 model selected |
| 11742 | | |
| 11743 | | > select add #13.2 |
| 11744 | | |
| 11745 | | 13658 atoms, 13944 bonds, 1686 residues, 2 models selected |
| 11746 | | |
| 11747 | | > select add #13.18 |
| 11748 | | |
| 11749 | | 20487 atoms, 20916 bonds, 2529 residues, 3 models selected |
| 11750 | | |
| 11751 | | > hide #!14 models |
| 11752 | | |
| 11753 | | > save /Volumes/Backup-95/Chimera-2023/PflB-PflA-project/Start- |
| 11754 | | > from_June2024/July_2024/Final- |
| 11755 | | > version_model/Flo_PflA_Local/3XPflB_For_Figure.pdb selectedOnly true |
| 11756 | | |
| 11757 | | > select add #13 |
| 11758 | | |
| 11759 | | 122922 atoms, 125496 bonds, 15174 residues, 19 models selected |
| 11760 | | |
| 11761 | | > select subtract #13 |
| 11762 | | |
| 11763 | | Nothing selected |
| 11764 | | |
| 11765 | | > hide #!13 models |
| 11766 | | |
| 11767 | | > show #!12 models |
| 11768 | | |
| 11769 | | > select add #12 |
| 11770 | | |
| 11771 | | 109872 atoms, 112014 bonds, 72 pseudobonds, 13482 residues, 55 models selected |
| 11772 | | |
| 11773 | | > ui mousemode right "rotate selected models" |
| 11774 | | |
| 11775 | | > view matrix models |
| 11776 | | > #12,0.93917,-0.3423,-0.027997,-535.69,0.34313,0.93867,0.033954,-802.39,0.014657,-0.041495,0.99903,-492.92 |
| 11777 | | |
| 11778 | | > ui mousemode right "translate selected models" |
| 11779 | | |
| 11780 | | > view matrix models |
| 11781 | | > #12,0.93917,-0.3423,-0.027997,-544.48,0.34313,0.93867,0.033954,-796.05,0.014657,-0.041495,0.99903,-495.99 |
| 11782 | | |
| 11783 | | > ui mousemode right "rotate selected models" |
| 11784 | | |
| 11785 | | > view matrix models |
| 11786 | | > #12,0.94942,-0.31252,-0.030531,-564.67,0.31337,0.9492,0.028622,-783.09,0.020035,-0.036742,0.99912,-501.47 |
| 11787 | | |
| 11788 | | > view matrix models |
| 11789 | | > #12,0.9534,-0.30006,-0.031633,-572.93,0.3009,0.95329,0.026431,-777.51,0.022225,-0.034717,0.99915,-503.74 |
| 11790 | | |
| 11791 | | > ui mousemode right "move picked models" |
| 11792 | | |
| 11793 | | > ui mousemode right "translate selected models" |
| 11794 | | |
| 11795 | | > view matrix models |
| 11796 | | > #12,0.9534,-0.30006,-0.031633,-591.15,0.3009,0.95329,0.026431,-773.38,0.022225,-0.034717,0.99915,-507.83 |
| 11797 | | |
| 11798 | | > view matrix models |
| 11799 | | > #12,0.9534,-0.30006,-0.031633,-589.15,0.3009,0.95329,0.026431,-773.36,0.022225,-0.034717,0.99915,-523.8 |
| 11800 | | |
| 11801 | | > show #!1 models |
| 11802 | | |
| 11803 | | > hide #!1 models |
| 11804 | | |
| 11805 | | > show #!13 models |
| 11806 | | |
| 11807 | | > view matrix models |
| 11808 | | > #12,0.9534,-0.30006,-0.031633,-571.9,0.3009,0.95329,0.026431,-763.51,0.022225,-0.034717,0.99915,-523.95 |
| 11809 | | |
| 11810 | | > ui mousemode right "rotate selected models" |
| 11811 | | |
| 11812 | | > ui mousemode right "translate selected models" |
| 11813 | | |
| 11814 | | > view matrix models |
| 11815 | | > #12,0.9534,-0.30006,-0.031633,-578.46,0.3009,0.95329,0.026431,-764.81,0.022225,-0.034717,0.99915,-524.27 |
| 11816 | | |
| 11817 | | > ui mousemode right "rotate selected models" |
| 11818 | | |
| 11819 | | > view matrix models |
| 11820 | | > #12,0.97201,-0.22901,-0.052453,-616.07,0.23037,0.97287,0.021462,-735.11,0.046115,-0.032945,0.99839,-537.61 |
| 11821 | | |
| 11822 | | > ui mousemode right "translate selected models" |
| 11823 | | |
| 11824 | | > view matrix models |
| 11825 | | > #12,0.97201,-0.22901,-0.052453,-615.62,0.23037,0.97287,0.021462,-720.56,0.046115,-0.032945,0.99839,-542.07 |
| 11826 | | |
| 11827 | | > view matrix models |
| 11828 | | > #12,0.97201,-0.22901,-0.052453,-634.23,0.23037,0.97287,0.021462,-725.26,0.046115,-0.032945,0.99839,-543.66 |
| 11829 | | |
| 11830 | | > close #12-14 |
| 11831 | | |
| 11832 | | > open /Volumes/Backup-95/Chimera-2023/PflB-PflA-project/Start- |
| 11833 | | > from_June2024/July_2024/Final-version_model/Flo_PflA_Local/New_PflA.pdb |
| 11834 | | > /Volumes/Backup-95/Chimera-2023/PflB-PflA-project/Start- |
| 11835 | | > from_June2024/July_2024/Final-version_model/Flo_PflA_Local/New_PflB.pdb |
| 11836 | | |
| 11837 | | Summary of feedback from opening /Volumes/Backup-95/Chimera-2023/PflB-PflA- |
| 11838 | | project/Start-from_June2024/July_2024/Final- |
| 11839 | | version_model/Flo_PflA_Local/New_PflA.pdb |
| 11840 | | --- |
| 11841 | | warnings | Start residue of secondary structure not found: HELIX 1 1 GLY A 2 LEU A 78 1 77 |
| 11842 | | Start residue of secondary structure not found: HELIX 2 2 LEU A 79 ILE A 81 1 |
| 11843 | | 3 |
| 11844 | | Start residue of secondary structure not found: HELIX 3 3 LYS A 107 LEU A 118 |
| 11845 | | 1 12 |
| 11846 | | Start residue of secondary structure not found: HELIX 4 4 ASN A 119 MET A 121 |
| 11847 | | 1 3 |
| 11848 | | Start residue of secondary structure not found: HELIX 5 5 GLU A 154 ILE A 156 |
| 11849 | | 1 3 |
| 11850 | | 679 messages similar to the above omitted |
| 11851 | | |
| 11852 | | Summary of feedback from opening /Volumes/Backup-95/Chimera-2023/PflB-PflA- |
| 11853 | | project/Start-from_June2024/July_2024/Final- |
| 11854 | | version_model/Flo_PflA_Local/New_PflB.pdb |
| 11855 | | --- |
| 11856 | | warnings | Start residue of secondary structure not found: HELIX 1 1 GLY A 2 LEU A 78 1 77 |
| 11857 | | Start residue of secondary structure not found: HELIX 2 2 LEU A 79 ILE A 81 1 |
| 11858 | | 3 |
| 11859 | | Start residue of secondary structure not found: HELIX 3 3 LYS A 107 LEU A 118 |
| 11860 | | 1 12 |
| 11861 | | Start residue of secondary structure not found: HELIX 4 4 ASN A 119 MET A 121 |
| 11862 | | 1 3 |
| 11863 | | Start residue of secondary structure not found: HELIX 5 5 GLU A 154 ILE A 156 |
| 11864 | | 1 3 |
| 11865 | | 337 messages similar to the above omitted |
| 11866 | | |
| 11867 | | Chain information for New_PflA.pdb |
| 11868 | | --- |
| 11869 | | Chain | Description |
| 11870 | | 12.1/A0 12.2/A2 12.3/A4 12.4/A6 12.5/A8 12.6/At 12.7/Av 12.8/Ax 12.9/Az 12.10/BB 12.11/BD 12.12/BF 12.13/BH 12.14/BJ 12.15/BL 12.16/BN 12.17/BP 12.18/BR | No description available |
| 11871 | | 12.19/CK 12.20/CM 12.21/CO 12.22/CQ 12.23/CS 12.24/CU 12.25/CW 12.26/CY 12.27/Ca 12.28/Cc 12.29/Ce 12.30/Cg 12.31/Ci 12.32/Ck 12.33/Cm 12.34/Co 12.35/Cq 12.36/Cs | No description available |
| 11872 | | |
| 11873 | | Chain information for New_PflB.pdb |
| 11874 | | --- |
| 11875 | | Chain | Description |
| 11876 | | 13.1/CJ 13.2/CL 13.3/CN 13.4/CP 13.5/CR 13.6/CT 13.7/CV 13.8/CX 13.9/CZ 13.10/Cb 13.11/Cd 13.12/Cf 13.13/Ch 13.14/Cj 13.15/Cl 13.16/Cn 13.17/Cp 13.18/Cr | No description available |
| 11877 | | |
| 11878 | | |
| 11879 | | > select add #12 |
| 11880 | | |
| 11881 | | 109872 atoms, 112014 bonds, 72 pseudobonds, 13482 residues, 55 models selected |
| 11882 | | |
| 11883 | | > select add #13 |
| 11884 | | |
| 11885 | | 232794 atoms, 237510 bonds, 72 pseudobonds, 28656 residues, 74 models selected |
| 11886 | | |
| 11887 | | > view matrix models |
| 11888 | | > #12,1,0,0,-521.29,0,1,0,-757.15,0,0,1,-99.846,#13,1,0,0,-521.29,0,1,0,-757.15,0,0,1,-99.846 |
| 11889 | | |
| 11890 | | > view matrix models |
| 11891 | | > #12,1,0,0,-674.3,0,1,0,-816.73,0,0,1,-503,#13,1,0,0,-674.3,0,1,0,-816.73,0,0,1,-503 |
| 11892 | | |
| 11893 | | > view matrix models |
| 11894 | | > #12,1,0,0,-818.6,0,1,0,-541.33,0,0,1,-541.51,#13,1,0,0,-818.6,0,1,0,-541.33,0,0,1,-541.51 |
| 11895 | | |
| 11896 | | > view matrix models |
| 11897 | | > #12,1,0,0,-801.6,0,1,0,-547.01,0,0,1,-538.38,#13,1,0,0,-801.6,0,1,0,-547.01,0,0,1,-538.38 |
| 11898 | | |
| 11899 | | > ui mousemode right "rotate selected models" |
| 11900 | | |
| 11901 | | [Repeated 1 time(s)] |
| 11902 | | |
| 11903 | | > view matrix models |
| 11904 | | > #12,0.99943,-0.0024951,0.03356,-816,0.0025771,0.99999,-0.0023996,-547.24,-0.033554,0.0024847,0.99943,-521.47,#13,0.99943,-0.0024951,0.03356,-816,0.0025771,0.99999,-0.0023996,-547.24,-0.033554,0.0024847,0.99943,-521.47 |
| 11905 | | |
| 11906 | | > view matrix models |
| 11907 | | > #12,0.99918,-0.029188,0.028162,-798.99,0.030798,0.99781,-0.058541,-534.38,-0.026392,0.05936,0.99789,-555.03,#13,0.99918,-0.029188,0.028162,-798.99,0.030798,0.99781,-0.058541,-534.38,-0.026392,0.05936,0.99789,-555.03 |
| 11908 | | |
| 11909 | | > ui mousemode right "translate selected models" |
| 11910 | | |
| 11911 | | > view orient |
| 11912 | | |
| 11913 | | > ui mousemode right "rotate selected models" |
| 11914 | | |
| 11915 | | > view matrix models |
| 11916 | | > #12,0.78826,0.61515,-0.015745,-1010.3,-0.61478,0.78618,-0.063026,-72.53,-0.026392,0.05936,0.99789,-555.03,#13,0.78826,0.61515,-0.015745,-1010.3,-0.61478,0.78618,-0.063026,-72.53,-0.026392,0.05936,0.99789,-555.03 |
| 11917 | | |
| 11918 | | > view matrix models |
| 11919 | | > #12,-0.91285,-0.35663,-0.19881,509.75,0.30121,-0.91692,0.26179,196,-0.27565,0.17909,0.94443,-460.28,#13,-0.91285,-0.35663,-0.19881,509.75,0.30121,-0.91692,0.26179,196,-0.27565,0.17909,0.94443,-460.28 |
| 11920 | | |
| 11921 | | > view matrix models |
| 11922 | | > #12,-0.91231,-0.35669,-0.20115,510.6,0.30125,-0.91733,0.26031,196.89,-0.27737,0.17689,0.94434,-458.14,#13,-0.91231,-0.35669,-0.20115,510.6,0.30125,-0.91733,0.26031,196.89,-0.27737,0.17689,0.94434,-458.14 |
| 11923 | | |
| 11924 | | > view matrix models |
| 11925 | | > #12,-0.91786,-0.31644,-0.23958,510.27,0.36303,-0.91334,-0.18444,372.99,-0.16046,-0.25626,0.9532,-292.95,#13,-0.91786,-0.31644,-0.23958,510.27,0.36303,-0.91334,-0.18444,372.99,-0.16046,-0.25626,0.9532,-292.95 |
| 11926 | | |
| 11927 | | > undo |
| 11928 | | |
| 11929 | | > view matrix models |
| 11930 | | > #12,-0.49013,-0.868,-0.079649,501.01,0.81728,-0.4894,0.3042,-329.87,-0.30303,0.084001,0.94927,-396.92,#13,-0.49013,-0.868,-0.079649,501.01,0.81728,-0.4894,0.3042,-329.87,-0.30303,0.084001,0.94927,-396.92 |
| 11931 | | |
| 11932 | | > view matrix models |
| 11933 | | > #12,-0.49535,-0.86438,-0.086411,505.08,0.82329,-0.49887,0.27077,-312.12,-0.27716,0.062985,0.95876,-404.01,#13,-0.49535,-0.86438,-0.086411,505.08,0.82329,-0.49887,0.27077,-312.12,-0.27716,0.062985,0.95876,-404.01 |
| 11934 | | |
| 11935 | | > view orient |
| 11936 | | |
| 11937 | | [Repeated 1 time(s)] |
| 11938 | | |
| 11939 | | > view matrix models |
| 11940 | | > #12,-0.18563,-0.98256,0.010887,356.46,0.94272,-0.17496,0.28402,-555.89,-0.27716,0.062985,0.95876,-404.01,#13,-0.18563,-0.98256,0.010887,356.46,0.94272,-0.17496,0.28402,-555.89,-0.27716,0.062985,0.95876,-404.01 |
| 11941 | | |
| 11942 | | > view matrix models |
| 11943 | | > #12,-0.18351,-0.98301,0.0031045,359.27,0.94593,-0.17572,0.27265,-551.79,-0.26748,0.052971,0.96211,-405.41,#13,-0.18351,-0.98301,0.0031045,359.27,0.94593,-0.17572,0.27265,-551.79,-0.26748,0.052971,0.96211,-405.41 |
| 11944 | | |
| 11945 | | > ui mousemode right "translate selected models" |
| 11946 | | |
| 11947 | | > view matrix models |
| 11948 | | > #12,-0.18351,-0.98301,0.0031045,359.43,0.94593,-0.17572,0.27265,-548.64,-0.26748,0.052971,0.96211,-395.12,#13,-0.18351,-0.98301,0.0031045,359.43,0.94593,-0.17572,0.27265,-548.64,-0.26748,0.052971,0.96211,-395.12 |
| 11949 | | |
| 11950 | | > view matrix models |
| 11951 | | > #12,-0.18351,-0.98301,0.0031045,358.91,0.94593,-0.17572,0.27265,-549.61,-0.26748,0.052971,0.96211,-394.94,#13,-0.18351,-0.98301,0.0031045,358.91,0.94593,-0.17572,0.27265,-549.61,-0.26748,0.052971,0.96211,-394.94 |
| 11952 | | |
| 11953 | | > ui mousemode right "rotate selected models" |
| 11954 | | |
| 11955 | | > view matrix models |
| 11956 | | > #12,-0.12979,-0.99153,0.0042033,334.22,0.95586,-0.12399,0.26639,-579.66,-0.26361,0.038591,0.96386,-390.13,#13,-0.12979,-0.99153,0.0042033,334.22,0.95586,-0.12399,0.26639,-579.66,-0.26361,0.038591,0.96386,-390.13 |
| 11957 | | |
| 11958 | | > view matrix models |
| 11959 | | > #12,-0.19228,-0.98134,0.0028902,362.81,0.94402,-0.18417,0.27368,-544.56,-0.26804,0.055352,0.96182,-395.77,#13,-0.19228,-0.98134,0.0028902,362.81,0.94402,-0.18417,0.27368,-544.56,-0.26804,0.055352,0.96182,-395.77 |
| 11960 | | |
| 11961 | | > ui mousemode right "translate selected models" |
| 11962 | | |
| 11963 | | > view matrix models |
| 11964 | | > #12,-0.19228,-0.98134,0.0028902,365.42,0.94402,-0.18417,0.27368,-554.48,-0.26804,0.055352,0.96182,-392.9,#13,-0.19228,-0.98134,0.0028902,365.42,0.94402,-0.18417,0.27368,-554.48,-0.26804,0.055352,0.96182,-392.9 |
| 11965 | | |
| 11966 | | > ui mousemode right "translate selected models" |
| 11967 | | |
| 11968 | | > view matrix models |
| 11969 | | > #12,-0.19228,-0.98134,0.0028902,365.05,0.94402,-0.18417,0.27368,-553.94,-0.26804,0.055352,0.96182,-393.08,#13,-0.19228,-0.98134,0.0028902,365.05,0.94402,-0.18417,0.27368,-553.94,-0.26804,0.055352,0.96182,-393.08 |
| 11970 | | |
| 11971 | | > view matrix models |
| 11972 | | > #12,-0.19228,-0.98134,0.0028902,362.37,0.94402,-0.18417,0.27368,-553.57,-0.26804,0.055352,0.96182,-393.5,#13,-0.19228,-0.98134,0.0028902,362.37,0.94402,-0.18417,0.27368,-553.57,-0.26804,0.055352,0.96182,-393.5 |
| 11973 | | |
| 11974 | | > ui mousemode right "rotate selected models" |
| 11975 | | |
| 11976 | | > view matrix models |
| 11977 | | > #12,0.30432,-0.95257,-6.2098e-06,82.602,0.93025,0.29719,0.21522,-776.17,-0.20501,-0.065503,0.97656,-369.52,#13,0.30432,-0.95257,-6.2098e-06,82.602,0.93025,0.29719,0.21522,-776.17,-0.20501,-0.065503,0.97656,-369.52 |
| 11978 | | |
| 11979 | | > view matrix models |
| 11980 | | > #12,-0.50993,-0.86013,-0.012205,474.59,0.81576,-0.48803,0.31041,-339.58,-0.27295,0.14833,0.95052,-435.32,#13,-0.50993,-0.86013,-0.012205,474.59,0.81576,-0.48803,0.31041,-339.58,-0.27295,0.14833,0.95052,-435.32 |
| 11981 | | |
| 11982 | | > ui mousemode right "translate selected models" |
| 11983 | | |
| 11984 | | > view matrix models |
| 11985 | | > #12,-0.50993,-0.86013,-0.012205,474.98,0.81576,-0.48803,0.31041,-333.86,-0.27295,0.14833,0.95052,-421.7,#13,-0.50993,-0.86013,-0.012205,474.98,0.81576,-0.48803,0.31041,-333.86,-0.27295,0.14833,0.95052,-421.7 |
| 11986 | | |
| 11987 | | > view matrix models |
| 11988 | | > #12,-0.50993,-0.86013,-0.012205,481.34,0.81576,-0.48803,0.31041,-331.89,-0.27295,0.14833,0.95052,-421.33,#13,-0.50993,-0.86013,-0.012205,481.34,0.81576,-0.48803,0.31041,-331.89,-0.27295,0.14833,0.95052,-421.33 |
| 11989 | | |
| 11990 | | > select clear |
| 11991 | | |
| 11992 | | > select add #13.1 |
| 11993 | | |
| 11994 | | 6829 atoms, 6972 bonds, 843 residues, 1 model selected |
| 11995 | | |
| 11996 | | > select subtract #13.1 |
| 11997 | | |
| 11998 | | Nothing selected |
| 11999 | | |
| 12000 | | > select add #13.4 |
| 12001 | | |
| 12002 | | 6829 atoms, 6972 bonds, 843 residues, 1 model selected |
| 12003 | | |
| 12004 | | > select subtract #13.4 |
| 12005 | | |
| 12006 | | Nothing selected |
| 12007 | | |
| 12008 | | > select add #13.9 |
| 12009 | | |
| 12010 | | 6829 atoms, 6972 bonds, 843 residues, 1 model selected |
| 12011 | | |
| 12012 | | > select subtract #13.9 |
| 12013 | | |
| 12014 | | Nothing selected |
| 12015 | | |
| 12016 | | > select add #13.13 |
| 12017 | | |
| 12018 | | 6829 atoms, 6972 bonds, 843 residues, 1 model selected |
| 12019 | | |
| 12020 | | > select add #13.14 |
| 12021 | | |
| 12022 | | 13658 atoms, 13944 bonds, 1686 residues, 2 models selected |
| 12023 | | |
| 12024 | | > show #!1 models |
| 12025 | | |
| 12026 | | > hide #!1 models |
| 12027 | | |
| 12028 | | > show #!3 models |
| 12029 | | |
| 12030 | | > hide #!3 models |
| 12031 | | |
| 12032 | | > show #!2 models |
| 12033 | | |
| 12034 | | > hide #!2 models |
| 12035 | | |
| 12036 | | > show #!4 models |
| 12037 | | |
| 12038 | | > hide #!4 models |
| 12039 | | |
| 12040 | | > select add #13.12 |
| 12041 | | |
| 12042 | | 20487 atoms, 20916 bonds, 2529 residues, 3 models selected |
| 12043 | | |
| 12044 | | > select subtract #13.12 |
| 12045 | | |
| 12046 | | 13658 atoms, 13944 bonds, 1686 residues, 2 models selected |
| 12047 | | |
| 12048 | | > select add #13.15 |
| 12049 | | |
| 12050 | | 20487 atoms, 20916 bonds, 2529 residues, 3 models selected |
| 12051 | | |
| 12052 | | > select add #12.28 |
| 12053 | | |
| 12054 | | 21596 atoms, 22052 bonds, 2666 residues, 4 models selected |
| 12055 | | |
| 12056 | | > select subtract #12.28 |
| 12057 | | |
| 12058 | | 20487 atoms, 20916 bonds, 2529 residues, 3 models selected |
| 12059 | | |
| 12060 | | > select add #12.19 |
| 12061 | | |
| 12062 | | 21596 atoms, 22052 bonds, 2666 residues, 4 models selected |
| 12063 | | |
| 12064 | | > select subtract #12.19 |
| 12065 | | |
| 12066 | | 20487 atoms, 20916 bonds, 2529 residues, 3 models selected |
| 12067 | | |
| 12068 | | > select subtract #13.13 |
| 12069 | | |
| 12070 | | 13658 atoms, 13944 bonds, 1686 residues, 2 models selected |
| 12071 | | |
| 12072 | | > select subtract #13.14 |
| 12073 | | |
| 12074 | | 6829 atoms, 6972 bonds, 843 residues, 1 model selected |
| 12075 | | |
| 12076 | | > select subtract #13.15 |
| 12077 | | |
| 12078 | | Nothing selected |
| 12079 | | |
| 12080 | | > hide #!13 models |
| 12081 | | |
| 12082 | | > hide #!6 models |
| 12083 | | |
| 12084 | | > undo |
| 12085 | | |
| 12086 | | > show #!13 models |
| 12087 | | |
| 12088 | | > hide #!13 models |
| 12089 | | |
| 12090 | | > undo |
| 12091 | | |
| 12092 | | [Repeated 7 time(s)] |
| 12093 | | |
| 12094 | | > select add #13 |
| 12095 | | |
| 12096 | | 122922 atoms, 125496 bonds, 15174 residues, 19 models selected |
| 12097 | | |
| 12098 | | > select subtract #13 |
| 12099 | | |
| 12100 | | Nothing selected |
| 12101 | | |
| 12102 | | > hide #!13 models |
| 12103 | | |
| 12104 | | > hide #!6 models |
| 12105 | | |
| 12106 | | Drag select of 1603 residues |
| 12107 | | Drag select of 128 residues |
| 12108 | | |
| 12109 | | > select add #12.33 |
| 12110 | | |
| 12111 | | 14230 atoms, 1136 bonds, 1740 residues, 6 models selected |
| 12112 | | |
| 12113 | | > select add #12.32 |
| 12114 | | |
| 12115 | | 14418 atoms, 2272 bonds, 1765 residues, 6 models selected |
| 12116 | | |
| 12117 | | > select add #12.31 |
| 12118 | | |
| 12119 | | 14502 atoms, 3408 bonds, 1776 residues, 6 models selected |
| 12120 | | |
| 12121 | | > select add #12.15 |
| 12122 | | |
| 12123 | | 16773 atoms, 8495 bonds, 4 pseudobonds, 2056 residues, 7 models selected |
| 12124 | | |
| 12125 | | > select add #12.14 |
| 12126 | | |
| 12127 | | 16773 atoms, 13582 bonds, 8 pseudobonds, 2056 residues, 8 models selected |
| 12128 | | |
| 12129 | | > select add #12.9 |
| 12130 | | |
| 12131 | | 18312 atoms, 18669 bonds, 12 pseudobonds, 2247 residues, 9 models selected |
| 12132 | | |
| 12133 | | > hide #12.36 models |
| 12134 | | |
| 12135 | | > show #12.36 models |
| 12136 | | |
| 12137 | | > show #!13 models |
| 12138 | | |
| 12139 | | > select add #13.13 |
| 12140 | | |
| 12141 | | 25141 atoms, 25641 bonds, 12 pseudobonds, 3090 residues, 10 models selected |
| 12142 | | |
| 12143 | | > select add #13.14 |
| 12144 | | |
| 12145 | | 31970 atoms, 32613 bonds, 12 pseudobonds, 3933 residues, 11 models selected |
| 12146 | | |
| 12147 | | > select add #13.15 |
| 12148 | | |
| 12149 | | 38799 atoms, 39585 bonds, 12 pseudobonds, 4776 residues, 12 models selected |
| 12150 | | |
| 12151 | | > save /Volumes/Backup-95/Chimera-2023/PflB-PflA-project/Start- |
| 12152 | | > from_June2024/July_2024/Final-version_model/Flo_PflA_Local/3XPflA- |
| 12153 | | > PflB_For_Figure.pdb selectedOnly true |
| 12154 | | |
| 12155 | | > select add #13 |
| 12156 | | |
| 12157 | | 141234 atoms, 144165 bonds, 12 pseudobonds, 17421 residues, 28 models selected |
| 12158 | | |
| 12159 | | > select add #12 |
| 12160 | | |
| 12161 | | 232794 atoms, 237510 bonds, 72 pseudobonds, 28656 residues, 74 models selected |
| 12162 | | |
| 12163 | | > select subtract #12 |
| 12164 | | |
| 12165 | | 122922 atoms, 125496 bonds, 15174 residues, 19 models selected |
| 12166 | | |
| 12167 | | > select subtract #13 |
| 12168 | | |
| 12169 | | Nothing selected |
| 12170 | | |
| 12171 | | > hide #!13 models |
| 12172 | | |
| 12173 | | > hide #!12 models |
| 12174 | | |
| 12175 | | > open /Volumes/Backup-95/Chimera-2023/PflB-PflA-project/Start- |
| 12176 | | > from_June2024/July_2024/Final-version_model/Flo_PflA_Local/3XPflA- |
| 12177 | | > PflB_For_Figure.pdb |
| 12178 | | |
| 12179 | | Summary of feedback from opening /Volumes/Backup-95/Chimera-2023/PflB-PflA- |
| 12180 | | project/Start-from_June2024/July_2024/Final- |
| 12181 | | version_model/Flo_PflA_Local/3XPflA-PflB_For_Figure.pdb |
| 12182 | | --- |
| 12183 | | warnings | Start residue of secondary structure not found: HELIX 1 1 TYRA0 183 ASPA0 196 1 14 |
| 12184 | | Start residue of secondary structure not found: HELIX 2 2 TYRA0 200 ASNA0 213 |
| 12185 | | 1 14 |
| 12186 | | Start residue of secondary structure not found: HELIX 3 3 LYSA0 220 LEUA0 234 |
| 12187 | | 1 15 |
| 12188 | | Start residue of secondary structure not found: HELIX 4 4 LYSA0 238 ASNA0 251 |
| 12189 | | 1 14 |
| 12190 | | Start residue of secondary structure not found: HELIX 5 5 ILEA0 258 GLUA0 271 |
| 12191 | | 1 14 |
| 12192 | | 373 messages similar to the above omitted |
| 12193 | | |
| 12194 | | Chain information for 3XPflA-PflB_For_Figure.pdb |
| 12195 | | --- |
| 12196 | | Chain | Description |
| 12197 | | 14.1/Az 14.2/BJ 14.3/BL | No description available |
| 12198 | | 14.7/Ch 14.8/Cj 14.9/Cl | No description available |
| 12199 | | 14.4/Ci 14.5/Ck 14.6/Cm | No description available |
| 12200 | | |
| 12201 | | |
| 12202 | | > show #!1 models |
| 12203 | | |
| 12204 | | > show #!2 models |
| 12205 | | |
| 12206 | | > hide #!1 models |
| 12207 | | |
| 12208 | | > hide #!2 models |
| 12209 | | |
| 12210 | | > show #!6 models |
| 12211 | | |
| 12212 | | > show #!1 models |
| 12213 | | |
| 12214 | | > hide #!1 models |
| 12215 | | |
| 12216 | | > show #!1 models |
| 12217 | | |
| 12218 | | > hide #!1 models |
| 12219 | | |
| 12220 | | > show #!1 models |
| 12221 | | |
| 12222 | | > hide #!1 models |
| 12223 | | |
| 12224 | | > show #!1 models |
| 12225 | | |
| 12226 | | > hide #!1 models |
| 12227 | | |
| 12228 | | > combine #14 modelId #15 name 3XPflAB |
| 12229 | | |
| 12230 | | > hide #!14 models |
| 12231 | | |
| 12232 | | > ui tool show "Fit in Map" |
| 12233 | | |
| 12234 | | > fitmap #15 inMap #6 |
| 12235 | | |
| 12236 | | Fit molecule 3XPflAB (#15) to map 3Xunits.mrc (#6) using 38799 atoms |
| 12237 | | average map value = 2.154, steps = 168 |
| 12238 | | shifted from previous position = 9.31 |
| 12239 | | rotated from previous position = 16.8 degrees |
| 12240 | | atoms outside contour = 17471, contour level = 0.1847 |
| 12241 | | |
| 12242 | | Position of 3XPflAB (#15) relative to 3Xunits.mrc (#6) coordinates: |
| 12243 | | Matrix rotation and translation |
| 12244 | | 0.99462895 0.03678980 0.09674590 -6.40729211 |
| 12245 | | -0.00917946 0.96236927 -0.27158998 -9.52019787 |
| 12246 | | -0.10309702 0.26924318 0.95753805 -12.34964828 |
| 12247 | | Axis 0.93504439 0.34550766 -0.07947608 |
| 12248 | | Axis point 0.00000000 43.50384781 -30.52375104 |
| 12249 | | Rotation angle (degrees) 16.81017889 |
| 12250 | | Shift along axis -8.29890223 |
| 12251 | | |
| 12252 | | |
| 12253 | | > fitmap #15 inMap #6 |
| 12254 | | |
| 12255 | | Fit molecule 3XPflAB (#15) to map 3Xunits.mrc (#6) using 38799 atoms |
| 12256 | | average map value = 2.154, steps = 28 |
| 12257 | | shifted from previous position = 0.0497 |
| 12258 | | rotated from previous position = 0.0178 degrees |
| 12259 | | atoms outside contour = 17462, contour level = 0.1847 |
| 12260 | | |
| 12261 | | Position of 3XPflAB (#15) relative to 3Xunits.mrc (#6) coordinates: |
| 12262 | | Matrix rotation and translation |
| 12263 | | 0.99464111 0.03692161 0.09657053 -6.40475417 |
| 12264 | | -0.00937546 0.96242184 -0.27139696 -9.49328505 |
| 12265 | | -0.10296200 0.26903717 0.95761048 -12.38014369 |
| 12266 | | Axis 0.93508874 0.34524211 -0.08010574 |
| 12267 | | Axis point 0.00000000 43.67465586 -30.50033372 |
| 12268 | | Rotation angle (degrees) 16.79658762 |
| 12269 | | Shift along axis -8.27477473 |
| 12270 | | |
| 12271 | | |
| 12272 | | > fitmap #15 inMap #6 |
| 12273 | | |
| 12274 | | Fit molecule 3XPflAB (#15) to map 3Xunits.mrc (#6) using 38799 atoms |
| 12275 | | average map value = 2.154, steps = 28 |
| 12276 | | shifted from previous position = 0.05 |
| 12277 | | rotated from previous position = 0.0179 degrees |
| 12278 | | atoms outside contour = 17470, contour level = 0.1847 |
| 12279 | | |
| 12280 | | Position of 3XPflAB (#15) relative to 3Xunits.mrc (#6) coordinates: |
| 12281 | | Matrix rotation and translation |
| 12282 | | 0.99462364 0.03681644 0.09679029 -6.40747251 |
| 12283 | | -0.00919551 0.96237529 -0.27156812 -9.52193056 |
| 12284 | | -0.10314675 0.26921804 0.95753976 -12.34665377 |
| 12285 | | Axis 0.93497610 0.34567518 -0.07955098 |
| 12286 | | Axis point 0.00000000 43.49956479 -30.52433596 |
| 12287 | | Rotation angle (degrees) 16.80993871 |
| 12288 | | Shift along axis -8.30014028 |
| 12289 | | |
| 12290 | | |
| 12291 | | > save /Volumes/Backup-95/Chimera-2023/PflB-PflA-project/Start- |
| 12292 | | > from_June2024/July_2024/Final- |
| 12293 | | > version_model/Flo_PflA_Local/For_Figure4_PflAB.cxs includeMaps true |
| 12294 | | |
| 12295 | | [Repeated 1 time(s)] |
| 12296 | | |
| 12297 | | ——— End of log from Fri Jul 26 15:41:13 2024 ——— |
| 12298 | | |
| 12299 | | opened ChimeraX session |
| 12300 | | Showing 3Xunits.seg - 52 regions, 52 surfaces |
| 12301 | | |
| 12302 | | > open /Volumes/Backup-95/Chimera-2023/PflB-PflA-project/Start- |
| 12303 | | > from_June2024/July_2024/Final-version_model/Flo_PflA_Local/38xcage.pdb |
| 12304 | | |
| 12305 | | Chain information for 38xcage.pdb |
| 12306 | | --- |
| 12307 | | Chain | Description |
| 12308 | | 16.1/A 16.2/A 16.3/A 16.4/A 16.5/A 16.6/A 16.7/A 16.8/A 16.9/A 16.10/A 16.11/A 16.12/A 16.13/A 16.14/A 16.15/A 16.16/A 16.17/A 16.18/A 16.19/A 16.20/A 16.21/A 16.22/A 16.23/A 16.24/A 16.25/A 16.26/A 16.27/A 16.28/A 16.29/A 16.30/A 16.31/A 16.32/A 16.33/A 16.34/A 16.35/A 16.36/A | No description available |
| 12309 | | 16.1/B 16.2/B 16.3/B 16.4/B 16.5/B 16.6/B 16.7/B 16.8/B 16.9/B 16.10/B 16.11/B 16.12/B 16.13/B 16.14/B 16.15/B 16.16/B 16.17/B 16.18/B 16.19/B 16.20/B 16.21/B 16.22/B 16.23/B 16.24/B 16.25/B 16.26/B 16.27/B 16.28/B 16.29/B 16.30/B 16.31/B 16.32/B 16.33/B 16.34/B 16.35/B 16.36/B | No description available |
| 12310 | | |
| 12311 | | |
| 12312 | | > select add #16 |
| 12313 | | |
| 12314 | | 99648 atoms, 101772 bonds, 12096 residues, 37 models selected |
| 12315 | | |
| 12316 | | > view matrix models #16,1,0,0,-827.48,0,1,0,-569.5,0,0,1,-43.802 |
| 12317 | | |
| 12318 | | > ui mousemode right "rotate selected models" |
| 12319 | | |
| 12320 | | > view matrix models |
| 12321 | | > #16,0.99267,0.1207,-0.0060172,-885.78,-0.12075,0.99263,-0.0097829,-496.35,0.0047921,0.010438,0.99993,-51.959 |
| 12322 | | |
| 12323 | | > ui mousemode right "move picked models" |
| 12324 | | |
| 12325 | | > ui mousemode right "translate selected models" |
| 12326 | | |
| 12327 | | > view matrix models |
| 12328 | | > #16,0.99267,0.1207,-0.0060172,-851.95,-0.12075,0.99263,-0.0097829,-530.26,0.0047921,0.010438,0.99993,-505.69 |
| 12329 | | |
| 12330 | | > hide #!6 models |
| 12331 | | |
| 12332 | | > hide #!2 models |
| 12333 | | |
| 12334 | | > show #!6 models |
| 12335 | | |
| 12336 | | > view matrix models |
| 12337 | | > #16,0.99267,0.1207,-0.0060172,-843.71,-0.12075,0.99263,-0.0097829,-517.73,0.0047921,0.010438,0.99993,-505.14 |
| 12338 | | |
| 12339 | | > view matrix models |
| 12340 | | > #16,0.99267,0.1207,-0.0060172,-833.32,-0.12075,0.99263,-0.0097829,-552.99,0.0047921,0.010438,0.99993,-547.81 |
| 12341 | | |
| 12342 | | > view matrix models |
| 12343 | | > #16,0.99267,0.1207,-0.0060172,-832.55,-0.12075,0.99263,-0.0097829,-552.33,0.0047921,0.010438,0.99993,-547.97 |
| 12344 | | |
| 12345 | | > view matrix models |
| 12346 | | > #16,0.99267,0.1207,-0.0060172,-830.52,-0.12075,0.99263,-0.0097829,-546.96,0.0047921,0.010438,0.99993,-548.4 |
| 12347 | | |
| 12348 | | > ui mousemode right "rotate selected models" |
| 12349 | | |
| 12350 | | > view matrix models |
| 12351 | | > #16,0.98673,0.16225,-0.0065777,-849.42,-0.16226,0.98675,-0.001445,-525.19,0.0062561,0.0024931,0.99998,-544.93 |
| 12352 | | |
| 12353 | | > view matrix models |
| 12354 | | > #16,0.98655,0.16312,-0.010639,-848,-0.16318,0.98658,-0.0052162,-522.94,0.0096456,0.0068822,0.99993,-549.09 |
| 12355 | | |
| 12356 | | > view matrix models |
| 12357 | | > #16,0.98493,0.16616,0.047895,-874.67,-0.16542,0.98604,-0.019171,-515.27,-0.050411,0.01096,0.99867,-518.47 |
| 12358 | | |
| 12359 | | > ui mousemode right "translate selected models" |
| 12360 | | |
| 12361 | | > view matrix models |
| 12362 | | > #16,0.98493,0.16616,0.047895,-885.95,-0.16542,0.98604,-0.019171,-505.9,-0.050411,0.01096,0.99867,-516.38 |
| 12363 | | |
| 12364 | | > view matrix models |
| 12365 | | > #16,0.98493,0.16616,0.047895,-900.24,-0.16542,0.98604,-0.019171,-500.14,-0.050411,0.01096,0.99867,-513.67 |
| 12366 | | |
| 12367 | | > select subtract #16 |
| 12368 | | |
| 12369 | | Nothing selected |
| 12370 | | |
| 12371 | | > select add #16.6 |
| 12372 | | |
| 12373 | | 2768 atoms, 2827 bonds, 336 residues, 1 model selected |
| 12374 | | |
| 12375 | | > select subtract #16.6 |
| 12376 | | |
| 12377 | | Nothing selected |
| 12378 | | |
| 12379 | | > select add #16.27 |
| 12380 | | |
| 12381 | | 2768 atoms, 2827 bonds, 336 residues, 1 model selected |
| 12382 | | |
| 12383 | | > select add #16.28 |
| 12384 | | |
| 12385 | | 5536 atoms, 5654 bonds, 672 residues, 2 models selected |
| 12386 | | |
| 12387 | | > select add #16.29 |
| 12388 | | |
| 12389 | | 8304 atoms, 8481 bonds, 1008 residues, 3 models selected |
| 12390 | | |
| 12391 | | > select add #16.9 |
| 12392 | | |
| 12393 | | 11072 atoms, 11308 bonds, 1344 residues, 4 models selected |
| 12394 | | |
| 12395 | | > select add #16.10 |
| 12396 | | |
| 12397 | | 13840 atoms, 14135 bonds, 1680 residues, 5 models selected |
| 12398 | | |
| 12399 | | > select add #16.11 |
| 12400 | | |
| 12401 | | 16608 atoms, 16962 bonds, 2016 residues, 6 models selected |
| 12402 | | |
| 12403 | | > save /Volumes/Backup-95/Chimera-2023/PflB-PflA-project/Start- |
| 12404 | | > from_June2024/July_2024/Final-version_model/Flo_PflA_Local/Cage- |
| 12405 | | > for-3units.pdb selectedOnly true |
| 12406 | | |
| 12407 | | > select add #16 |
| 12408 | | |
| 12409 | | 99648 atoms, 101772 bonds, 12096 residues, 37 models selected |
| 12410 | | |
| 12411 | | > select subtract #16 |
| 12412 | | |
| 12413 | | Nothing selected |
| 12414 | | |
| 12415 | | > hide #!16 models |
| 12416 | | |
| 12417 | | > open /Volumes/Backup-95/Chimera-2023/PflB-PflA-project/Start- |
| 12418 | | > from_June2024/July_2024/Final-version_model/Flo_PflA_Local/Cage- |
| 12419 | | > for-3units.pdb |
| 12420 | | |
| 12421 | | Summary of feedback from opening /Volumes/Backup-95/Chimera-2023/PflB-PflA- |
| 12422 | | project/Start-from_June2024/July_2024/Final-version_model/Flo_PflA_Local/Cage- |
| 12423 | | for-3units.pdb |
| 12424 | | --- |
| 12425 | | warnings | Start residue of secondary structure not found: HELIX 1 1 TYRA0 183 ASPA0 196 1 14 |
| 12426 | | Start residue of secondary structure not found: HELIX 2 2 TYRA0 200 ASNA0 213 |
| 12427 | | 1 14 |
| 12428 | | Start residue of secondary structure not found: HELIX 3 3 LYSA0 220 LEUA0 234 |
| 12429 | | 1 15 |
| 12430 | | Start residue of secondary structure not found: HELIX 4 4 LYSA0 238 ASNA0 251 |
| 12431 | | 1 14 |
| 12432 | | Start residue of secondary structure not found: HELIX 5 5 ILEA0 258 GLUA0 271 |
| 12433 | | 1 14 |
| 12434 | | 247 messages similar to the above omitted |
| 12435 | | |
| 12436 | | Chain information for Cage-for-3units.pdb |
| 12437 | | --- |
| 12438 | | Chain | Description |
| 12439 | | 17.1/A 17.2/A 17.3/A 17.4/A 17.5/A 17.6/A | No description available |
| 12440 | | 17.1/B 17.2/B 17.3/B 17.4/B 17.5/B 17.6/B | No description available |
| 12441 | | |
| 12442 | | |
| 12443 | | > select add #17 |
| 12444 | | |
| 12445 | | 16608 atoms, 16962 bonds, 2016 residues, 7 models selected |
| 12446 | | |
| 12447 | | > select subtract #17 |
| 12448 | | |
| 12449 | | Nothing selected |
| 12450 | | |
| 12451 | | > select add #17.1 |
| 12452 | | |
| 12453 | | 2768 atoms, 2827 bonds, 336 residues, 1 model selected |
| 12454 | | |
| 12455 | | > combine #17 modelId #18 name Cage |
| 12456 | | |
| 12457 | | Remapping chain ID 'A' in Cage-for-3units.pdb #17.2 to 'C' |
| 12458 | | Remapping chain ID 'B' in Cage-for-3units.pdb #17.2 to 'D' |
| 12459 | | Remapping chain ID 'A' in Cage-for-3units.pdb #17.3 to 'E' |
| 12460 | | Remapping chain ID 'B' in Cage-for-3units.pdb #17.3 to 'F' |
| 12461 | | Remapping chain ID 'A' in Cage-for-3units.pdb #17.4 to 'G' |
| 12462 | | Remapping chain ID 'B' in Cage-for-3units.pdb #17.4 to 'H' |
| 12463 | | Remapping chain ID 'A' in Cage-for-3units.pdb #17.5 to 'I' |
| 12464 | | Remapping chain ID 'B' in Cage-for-3units.pdb #17.5 to 'J' |
| 12465 | | Remapping chain ID 'A' in Cage-for-3units.pdb #17.6 to 'K' |
| 12466 | | Remapping chain ID 'B' in Cage-for-3units.pdb #17.6 to 'L' |
| 12467 | | |
| 12468 | | > ui tool show "Fit in Map" |
| 12469 | | |
| 12470 | | > fitmap #18 inMap #6 |
| 12471 | | |
| 12472 | | Fit molecule Cage (#18) to map 3Xunits.mrc (#6) using 16608 atoms |
| 12473 | | average map value = 2.444, steps = 152 |
| 12474 | | shifted from previous position = 22.7 |
| 12475 | | rotated from previous position = 11.5 degrees |
| 12476 | | atoms outside contour = 8239, contour level = 0.1847 |
| 12477 | | |
| 12478 | | Position of Cage (#18) relative to 3Xunits.mrc (#6) coordinates: |
| 12479 | | Matrix rotation and translation |
| 12480 | | 0.98420114 0.17466936 0.02896094 15.18429004 |
| 12481 | | -0.17661022 0.98008584 0.09077766 20.68378027 |
| 12482 | | -0.01252813 -0.09445827 0.99544999 19.05066641 |
| 12483 | | Axis -0.46391541 0.10390761 -0.87976457 |
| 12484 | | Axis point 131.82850583 -17.49249647 0.00000000 |
| 12485 | | Rotation angle (degrees) 11.51614665 |
| 12486 | | Shift along axis -21.65512535 |
| 12487 | | |
| 12488 | | |
| 12489 | | > select add #17 |
| 12490 | | |
| 12491 | | 16608 atoms, 16962 bonds, 2016 residues, 7 models selected |
| 12492 | | |
| 12493 | | > hide #!17 models |
| 12494 | | |
| 12495 | | > select subtract #17 |
| 12496 | | |
| 12497 | | Nothing selected |
| 12498 | | |
| 12499 | | > close #17 |
| 12500 | | |
| 12501 | | > split #18 |
| 12502 | | |
| 12503 | | Split Cage (#18) into 12 models |
| 12504 | | Chain information for Cage A #18.1 |
| 12505 | | --- |
| 12506 | | Chain | Description |
| 12507 | | A | No description available |
| 12508 | | |
| 12509 | | Chain information for Cage B #18.2 |
| 12510 | | --- |
| 12511 | | Chain | Description |
| 12512 | | B | No description available |
| 12513 | | |
| 12514 | | Chain information for Cage C #18.3 |
| 12515 | | --- |
| 12516 | | Chain | Description |
| 12517 | | C | No description available |
| 12518 | | |
| 12519 | | Chain information for Cage D #18.4 |
| 12520 | | --- |
| 12521 | | Chain | Description |
| 12522 | | D | No description available |
| 12523 | | |
| 12524 | | Chain information for Cage E #18.5 |
| 12525 | | --- |
| 12526 | | Chain | Description |
| 12527 | | E | No description available |
| 12528 | | |
| 12529 | | Chain information for Cage F #18.6 |
| 12530 | | --- |
| 12531 | | Chain | Description |
| 12532 | | F | No description available |
| 12533 | | |
| 12534 | | Chain information for Cage G #18.7 |
| 12535 | | --- |
| 12536 | | Chain | Description |
| 12537 | | G | No description available |
| 12538 | | |
| 12539 | | Chain information for Cage H #18.8 |
| 12540 | | --- |
| 12541 | | Chain | Description |
| 12542 | | H | No description available |
| 12543 | | |
| 12544 | | Chain information for Cage I #18.9 |
| 12545 | | --- |
| 12546 | | Chain | Description |
| 12547 | | I | No description available |
| 12548 | | |
| 12549 | | Chain information for Cage J #18.10 |
| 12550 | | --- |
| 12551 | | Chain | Description |
| 12552 | | J | No description available |
| 12553 | | |
| 12554 | | Chain information for Cage K #18.11 |
| 12555 | | --- |
| 12556 | | Chain | Description |
| 12557 | | K | No description available |
| 12558 | | |
| 12559 | | Chain information for Cage L #18.12 |
| 12560 | | --- |
| 12561 | | Chain | Description |
| 12562 | | L | No description available |
| 12563 | | |
| 12564 | | |
| 12565 | | > split #15] |
| 12566 | | |
| 12567 | | Expected a structures specifier or a keyword |
| 12568 | | |
| 12569 | | > split #15 |
| 12570 | | |
| 12571 | | Split 3XPflAB (#15) into 9 models |
| 12572 | | Chain information for 3XPflAB Az #15.1 |
| 12573 | | --- |
| 12574 | | Chain | Description |
| 12575 | | Az | No description available |
| 12576 | | |
| 12577 | | Chain information for 3XPflAB BJ #15.2 |
| 12578 | | --- |
| 12579 | | Chain | Description |
| 12580 | | BJ | No description available |
| 12581 | | |
| 12582 | | Chain information for 3XPflAB BL #15.3 |
| 12583 | | --- |
| 12584 | | Chain | Description |
| 12585 | | BL | No description available |
| 12586 | | |
| 12587 | | Chain information for 3XPflAB Ch #15.4 |
| 12588 | | --- |
| 12589 | | Chain | Description |
| 12590 | | Ch | No description available |
| 12591 | | |
| 12592 | | Chain information for 3XPflAB Ci #15.5 |
| 12593 | | --- |
| 12594 | | Chain | Description |
| 12595 | | Ci | No description available |
| 12596 | | |
| 12597 | | Chain information for 3XPflAB Cj #15.6 |
| 12598 | | --- |
| 12599 | | Chain | Description |
| 12600 | | Cj | No description available |
| 12601 | | |
| 12602 | | Chain information for 3XPflAB Ck #15.7 |
| 12603 | | --- |
| 12604 | | Chain | Description |
| 12605 | | Ck | No description available |
| 12606 | | |
| 12607 | | Chain information for 3XPflAB Cl #15.8 |
| 12608 | | --- |
| 12609 | | Chain | Description |
| 12610 | | Cl | No description available |
| 12611 | | |
| 12612 | | Chain information for 3XPflAB Cm #15.9 |
| 12613 | | --- |
| 12614 | | Chain | Description |
| 12615 | | Cm | No description available |
| 12616 | | |
| 12617 | | |
| 12618 | | > select add #18.12 |
| 12619 | | |
| 12620 | | 1486 atoms, 1517 bonds, 179 residues, 1 model selected |
| 12621 | | |
| 12622 | | > select subtract #18.12 |
| 12623 | | |
| 12624 | | Nothing selected |
| 12625 | | |
| 12626 | | > hide #18.1 models |
| 12627 | | |
| 12628 | | > show #18.1 models |
| 12629 | | |
| 12630 | | > hide #18.1 models |
| 12631 | | |
| 12632 | | > hide #18.2 models |
| 12633 | | |
| 12634 | | > hide #!6 models |
| 12635 | | |
| 12636 | | > hide #!18 models |
| 12637 | | |
| 12638 | | Drag select of 564 residues |
| 12639 | | Drag select of 129 residues |
| 12640 | | |
| 12641 | | > select clear |
| 12642 | | |
| 12643 | | > hide #!15 models |
| 12644 | | |
| 12645 | | > show #!16 models |
| 12646 | | |
| 12647 | | > hide #!16 models |
| 12648 | | |
| 12649 | | > show #!15 models |
| 12650 | | |
| 12651 | | Drag select of 515 residues |
| 12652 | | |
| 12653 | | > select add #15.1 |
| 12654 | | |
| 12655 | | 8499 atoms, 5088 bonds, 1047 residues, 3 models selected |
| 12656 | | |
| 12657 | | > select subtract #15.1 |
| 12658 | | |
| 12659 | | 3504 atoms, 435 residues, 2 models selected |
| 12660 | | |
| 12661 | | > hide #15.1 models |
| 12662 | | |
| 12663 | | > hide #15.4 models |
| 12664 | | |
| 12665 | | > hide #15.5 models |
| 12666 | | |
| 12667 | | > select add #15.9 |
| 12668 | | |
| 12669 | | 4613 atoms, 1136 bonds, 572 residues, 3 models selected |
| 12670 | | |
| 12671 | | > select subtract #15.9 |
| 12672 | | |
| 12673 | | 3504 atoms, 435 residues, 2 models selected |
| 12674 | | |
| 12675 | | > select add #15.8 |
| 12676 | | |
| 12677 | | 10333 atoms, 6972 bonds, 1278 residues, 3 models selected |
| 12678 | | |
| 12679 | | > select subtract #15.8 |
| 12680 | | |
| 12681 | | 3504 atoms, 435 residues, 2 models selected |
| 12682 | | |
| 12683 | | > select add #15.7 |
| 12684 | | |
| 12685 | | 4613 atoms, 1136 bonds, 572 residues, 3 models selected |
| 12686 | | |
| 12687 | | > select subtract #15.7 |
| 12688 | | |
| 12689 | | 3504 atoms, 435 residues, 2 models selected |
| 12690 | | |
| 12691 | | > select add #15.6 |
| 12692 | | |
| 12693 | | 10333 atoms, 6972 bonds, 1278 residues, 3 models selected |
| 12694 | | |
| 12695 | | > select subtract #15.6 |
| 12696 | | |
| 12697 | | 3504 atoms, 435 residues, 2 models selected |
| 12698 | | |
| 12699 | | > select add #15.3 |
| 12700 | | |
| 12701 | | 8499 atoms, 5088 bonds, 1047 residues, 3 models selected |
| 12702 | | |
| 12703 | | > select subtract #15.3 |
| 12704 | | |
| 12705 | | 3504 atoms, 435 residues, 2 models selected |
| 12706 | | |
| 12707 | | > select add #15.2 |
| 12708 | | |
| 12709 | | 8499 atoms, 5088 bonds, 1047 residues, 3 models selected |
| 12710 | | |
| 12711 | | > select subtract #15.2 |
| 12712 | | |
| 12713 | | 3504 atoms, 435 residues, 2 models selected |
| 12714 | | |
| 12715 | | > show #!2 models |
| 12716 | | |
| 12717 | | > hide #!2 models |
| 12718 | | |
| 12719 | | > show #!18 models |
| 12720 | | |
| 12721 | | > show #!6 models |
| 12722 | | |
| 12723 | | > show #15.5 models |
| 12724 | | |
| 12725 | | > hide #15.5 models |
| 12726 | | |
| 12727 | | > show #15.4 models |
| 12728 | | |
| 12729 | | > select add #15.4 |
| 12730 | | |
| 12731 | | 7938 atoms, 6972 bonds, 980 residues, 2 models selected |
| 12732 | | |
| 12733 | | > select subtract #15.4 |
| 12734 | | |
| 12735 | | 1109 atoms, 137 residues, 1 model selected |
| 12736 | | |
| 12737 | | > hide #15.2 models |
| 12738 | | |
| 12739 | | > show #15.2 models |
| 12740 | | |
| 12741 | | > hide #15.9 models |
| 12742 | | |
| 12743 | | > show #15.9 models |
| 12744 | | |
| 12745 | | > hide #15.8 models |
| 12746 | | |
| 12747 | | > hide #15.2 models |
| 12748 | | |
| 12749 | | > show #15.2 models |
| 12750 | | |
| 12751 | | > hide #15.3 models |
| 12752 | | |
| 12753 | | > hide #15.4 models |
| 12754 | | |
| 12755 | | > show #15.4 models |
| 12756 | | |
| 12757 | | > hide #15.6 models |
| 12758 | | |
| 12759 | | > show #15.6 models |
| 12760 | | |
| 12761 | | > hide #15.7 models |
| 12762 | | |
| 12763 | | > show #15.7 models |
| 12764 | | |
| 12765 | | > select add #15.5 |
| 12766 | | |
| 12767 | | 1109 atoms, 1136 bonds, 137 residues, 1 model selected |
| 12768 | | Drag select of 15 residues |
| 12769 | | |
| 12770 | | > hide #15.9 models |
| 12771 | | |
| 12772 | | > select add #15.9 |
| 12773 | | |
| 12774 | | 2218 atoms, 2272 bonds, 274 residues, 2 models selected |
| 12775 | | |
| 12776 | | > select subtract #15.9 |
| 12777 | | |
| 12778 | | 1109 atoms, 1136 bonds, 137 residues, 1 model selected |
| 12779 | | |
| 12780 | | > set bgColor white |
| 12781 | | |
| 12782 | | > set bgColor #ffffff00 |
| 12783 | | |
| 12784 | | > color #6 #72727233 models |
| 12785 | | |
| 12786 | | > hide #15.2 models |
| 12787 | | |
| 12788 | | > show #15.2 models |
| 12789 | | |
| 12790 | | > color #15.2 #9850ffff models |
| 12791 | | |
| 12792 | | > color #15.2 #d310c9ff |
| 12793 | | |
| 12794 | | > color #15.2 #ec701aff |
| 12795 | | |
| 12796 | | > color #15.2 #ca676980 |
| 12797 | | |
| 12798 | | > color #15.2 #ca6769ff |
| 12799 | | |
| 12800 | | > color #15.2 #ca5254ff |
| 12801 | | |
| 12802 | | > color #15.2 #ca515eff |
| 12803 | | |
| 12804 | | > color #15.2 #ca4949ff |
| 12805 | | |
| 12806 | | > select subtract #15.5 |
| 12807 | | |
| 12808 | | Nothing selected |
| 12809 | | |
| 12810 | | > hide #15.6 models |
| 12811 | | |
| 12812 | | > show #15.6 models |
| 12813 | | |
| 12814 | | > hide #15.7 models |
| 12815 | | |
| 12816 | | > show #15.7 models |
| 12817 | | |
| 12818 | | > color #15.7 #9850ffff models |
| 12819 | | |
| 12820 | | > color #15.7 #ca4949ff |
| 12821 | | |
| 12822 | | > hide #15.4 models |
| 12823 | | |
| 12824 | | > show #15.4 models |
| 12825 | | |
| 12826 | | > hide #15.4 models |
| 12827 | | |
| 12828 | | > show #15.4 models |
| 12829 | | |
| 12830 | | > hide #15.6 models |
| 12831 | | |
| 12832 | | > show #15.6 models |
| 12833 | | |
| 12834 | | > color #15.6 #0067b6ff models |
| 12835 | | |
| 12836 | | > show #15.5 models |
| 12837 | | |
| 12838 | | > hide #15.5 models |
| 12839 | | |
| 12840 | | > show #15.4 models |
| 12841 | | |
| 12842 | | > color #15.4 magenta models |
| 12843 | | |
| 12844 | | > color #15.6 magenta models |
| 12845 | | |
| 12846 | | > color #15.6 #93329aff |
| 12847 | | |
| 12848 | | > color #15.4 magenta models |
| 12849 | | |
| 12850 | | [Repeated 1 time(s)] |
| 12851 | | |
| 12852 | | > color #15.6 magenta models |
| 12853 | | |
| 12854 | | > color #15.4 #b53ebdff |
| 12855 | | |
| 12856 | | > color #15.4 #8c3092ff |
| 12857 | | |
| 12858 | | > color #18 #52cdd6ff models |
| 12859 | | |
| 12860 | | > select add #6 |
| 12861 | | |
| 12862 | | 2 models selected |
| 12863 | | |
| 12864 | | > select add #15 |
| 12865 | | |
| 12866 | | 38799 atoms, 39588 bonds, 4776 residues, 12 models selected |
| 12867 | | |
| 12868 | | > select add #18 |
| 12869 | | |
| 12870 | | 55407 atoms, 56550 bonds, 6792 residues, 25 models selected |
| 12871 | | |
| 12872 | | > show sel & #15.2,4,6-7#18.3-12 surfaces |
| 12873 | | |
| 12874 | | > hide sel & #!15.2,4,6-7#!18.3-12 atoms |
| 12875 | | |
| 12876 | | > hide sel & #!15.2,4,6-7#!18.3-12 cartoons |
| 12877 | | |
| 12878 | | > lighting soft |
| 12879 | | |
| 12880 | | > view orient |
| 12881 | | |
| 12882 | | > select subtract #15 |
| 12883 | | |
| 12884 | | 16608 atoms, 16962 bonds, 2016 residues, 29 models selected |
| 12885 | | |
| 12886 | | > select clear |
| 12887 | | |
| 12888 | | > select add #15.2 |
| 12889 | | |
| 12890 | | 4995 atoms, 5088 bonds, 612 residues, 1 model selected |
| 12891 | | |
| 12892 | | > select subtract #15.2 |
| 12893 | | |
| 12894 | | 1 model selected |
| 12895 | | |
| 12896 | | > select add #15.2 |
| 12897 | | |
| 12898 | | 4995 atoms, 5088 bonds, 612 residues, 1 model selected |
| 12899 | | |
| 12900 | | > select subtract #15.2 |
| 12901 | | |
| 12902 | | 1 model selected |
| 12903 | | |
| 12904 | | > hide #!15.2 models |
| 12905 | | |
| 12906 | | > show #!15.2 models |
| 12907 | | |
| 12908 | | > select add #15.2 |
| 12909 | | |
| 12910 | | 4995 atoms, 5088 bonds, 612 residues, 1 model selected |
| 12911 | | |
| 12912 | | > select subtract #15.2 |
| 12913 | | |
| 12914 | | 1 model selected |
| 12915 | | |
| 12916 | | > select add #15.4 |
| 12917 | | |
| 12918 | | 6829 atoms, 6972 bonds, 843 residues, 1 model selected |
| 12919 | | |
| 12920 | | > select add #15.6 |
| 12921 | | |
| 12922 | | 13658 atoms, 13944 bonds, 1686 residues, 3 models selected |
| 12923 | | |
| 12924 | | > select subtract #15.6 |
| 12925 | | |
| 12926 | | 6829 atoms, 6972 bonds, 843 residues, 3 models selected |
| 12927 | | |
| 12928 | | > select add #15.6 |
| 12929 | | |
| 12930 | | 13658 atoms, 13944 bonds, 1686 residues, 3 models selected |
| 12931 | | |
| 12932 | | > select subtract #15.6 |
| 12933 | | |
| 12934 | | 6829 atoms, 6972 bonds, 843 residues, 3 models selected |
| 12935 | | |
| 12936 | | > select add #15.7 |
| 12937 | | |
| 12938 | | 7938 atoms, 8108 bonds, 980 residues, 3 models selected |
| 12939 | | |
| 12940 | | > select subtract #15.7 |
| 12941 | | |
| 12942 | | 6829 atoms, 6972 bonds, 843 residues, 3 models selected |
| 12943 | | |
| 12944 | | > select add #15.6 |
| 12945 | | |
| 12946 | | 13658 atoms, 13944 bonds, 1686 residues, 3 models selected |
| 12947 | | Alignment identifier is 1 |
| 12948 | | |
| 12949 | | > select #15.4/Ch:1 #15.6/Cj:1 |
| 12950 | | |
| 12951 | | 16 atoms, 14 bonds, 2 residues, 2 models selected |
| 12952 | | |
| 12953 | | > select #15.4/Ch:1-142 #15.6/Cj:1-142 |
| 12954 | | |
| 12955 | | 2204 atoms, 2218 bonds, 282 residues, 2 models selected |
| 12956 | | 1 [ID: 1] region chains Ch,Cj [1-141] RMSD: 127.125 |
| 12957 | | |
| 12958 | | |
| 12959 | | > hide sel surfaces |
| 12960 | | |
| 12961 | | > save /Volumes/Backup-95/Chimera-2023/PflB-PflA-project/Start- |
| 12962 | | > from_June2024/July_2024/Final- |
| 12963 | | > version_model/Flo_PflA_Local/For_Figure4_PflAB.cxs includeMaps true |
| 12964 | | |
| 12965 | | > view |
| 12966 | | |
| 12967 | | [Repeated 1 time(s)] |
| 12968 | | |
| 12969 | | > view name Top1 |
| 12970 | | |
| 12971 | | > save /Users/shoichi/Desktop/PflAB_local.png supersample 2 |
| 12972 | | > transparentBackground true |
| 12973 | | |
| 12974 | | > turn x 35 |
| 12975 | | |
| 12976 | | > turn x -35 |
| 12977 | | |
| 12978 | | [Repeated 2 time(s)] |
| 12979 | | |
| 12980 | | > view Top1 |
| 12981 | | |
| 12982 | | > turn x 90 |
| 12983 | | |
| 12984 | | [Repeated 2 time(s)] |
| 12985 | | |
| 12986 | | > turn x 10 |
| 12987 | | |
| 12988 | | [Repeated 5 time(s)] |
| 12989 | | |
| 12990 | | > view Top1 |
| 12991 | | |
| 12992 | | > turn x -35 |
| 12993 | | |
| 12994 | | > select up |
| 12995 | | |
| 12996 | | 13658 atoms, 13944 bonds, 1686 residues, 4 models selected |
| 12997 | | |
| 12998 | | > select up |
| 12999 | | |
| 13000 | | 13658 atoms, 13944 bonds, 1686 residues, 4 models selected |
| 13001 | | |
| 13002 | | > view Top1 |
| 13003 | | |
| 13004 | | > select add #15 |
| 13005 | | |
| 13006 | | 38799 atoms, 39588 bonds, 4776 residues, 12 models selected |
| 13007 | | |
| 13008 | | > select subtract #15 |
| 13009 | | |
| 13010 | | 4 models selected |
| 13011 | | |
| 13012 | | > save /Users/shoichi/Desktop/PflAB_local.png supersample 2 |
| 13013 | | > transparentBackground true |
| 13014 | | |
| 13015 | | > turn x 90 |
| 13016 | | |
| 13017 | | [Repeated 2 time(s)] |
| 13018 | | |
| 13019 | | > hide #!15 models |
| 13020 | | |
| 13021 | | > hide #!18 models |
| 13022 | | |
| 13023 | | > ui tool show "Map Eraser" |
| 13024 | | |
| 13025 | | > volume erase #6 center 28.224,-131.56,-185.36 radius 57.668 |
| 13026 | | |
| 13027 | | > show #!18 models |
| 13028 | | |
| 13029 | | > close #17 |
| 13030 | | |
| 13031 | | > show #!16 models |
| 13032 | | |
| 13033 | | > hide #!16 models |
| 13034 | | |
| 13035 | | > show #!15 models |
| 13036 | | |
| 13037 | | > view Top1 |
| 13038 | | |
| 13039 | | > turn x 90 |
| 13040 | | |
| 13041 | | [Repeated 2 time(s)] |
| 13042 | | |
| 13043 | | > view Top1 |
| 13044 | | |
| 13045 | | > turn x -40 |
| 13046 | | |
| 13047 | | [Repeated 1 time(s)] |
| 13048 | | |
| 13049 | | > view Top1 |
| 13050 | | |
| 13051 | | > turn x -70 |
| 13052 | | |
| 13053 | | > view Top1 |
| 13054 | | |
| 13055 | | > turn x -50 |
| 13056 | | |
| 13057 | | > save /Users/shoichi/Desktop/PflAB_local-tilt50.png supersample 2 |
| 13058 | | > transparentBackground true |
| 13059 | | |
| 13060 | | > hide #!18 models |
| 13061 | | |
| 13062 | | > hide #!15 models |
| 13063 | | |
| 13064 | | > ui tool show "Segment Map" |
| 13065 | | |
| 13066 | | Segmenting 3Xunits.mrc, density threshold 0.184695 |
| 13067 | | Showing 51 region surfaces |
| 13068 | | 262 watershed regions, grouped to 51 regions |
| 13069 | | Showing 3Xunits.seg - 51 regions, 51 surfaces |
| 13070 | | |
| 13071 | | > show #!16 models |
| 13072 | | |
| 13073 | | > hide #!16 models |
| 13074 | | |
| 13075 | | > show #!18 models |
| 13076 | | |
| 13077 | | > hide #!18 models |
| 13078 | | |
| 13079 | | > select add #2.49 |
| 13080 | | |
| 13081 | | 1 model selected |
| 13082 | | |
| 13083 | | > select add #2.5 |
| 13084 | | |
| 13085 | | 2 models selected |
| 13086 | | |
| 13087 | | > select add #2.3 |
| 13088 | | |
| 13089 | | 3 models selected |
| 13090 | | |
| 13091 | | > select add #2.11 |
| 13092 | | |
| 13093 | | 4 models selected |
| 13094 | | |
| 13095 | | > select add #2.8 |
| 13096 | | |
| 13097 | | 5 models selected |
| 13098 | | |
| 13099 | | > select add #2.33 |
| 13100 | | |
| 13101 | | 6 models selected |
| 13102 | | |
| 13103 | | > select add #2.32 |
| 13104 | | |
| 13105 | | 7 models selected |
| 13106 | | |
| 13107 | | > select add #2.18 |
| 13108 | | |
| 13109 | | 8 models selected |
| 13110 | | |
| 13111 | | > select add #2.16 |
| 13112 | | |
| 13113 | | 9 models selected |
| 13114 | | |
| 13115 | | > select add #2.17 |
| 13116 | | |
| 13117 | | 10 models selected |
| 13118 | | |
| 13119 | | > select add #2.31 |
| 13120 | | |
| 13121 | | 11 models selected |
| 13122 | | |
| 13123 | | > select add #2.45 |
| 13124 | | |
| 13125 | | 12 models selected |
| 13126 | | |
| 13127 | | > select add #2.30 |
| 13128 | | |
| 13129 | | 13 models selected |
| 13130 | | |
| 13131 | | > select add #2.25 |
| 13132 | | |
| 13133 | | 14 models selected |
| 13134 | | |
| 13135 | | > select add #2.44 |
| 13136 | | |
| 13137 | | 15 models selected |
| 13138 | | |
| 13139 | | > select add #2.2 |
| 13140 | | |
| 13141 | | 16 models selected |
| 13142 | | |
| 13143 | | > select subtract #2.2 |
| 13144 | | |
| 13145 | | 15 models selected |
| 13146 | | |
| 13147 | | > show #!16 models |
| 13148 | | |
| 13149 | | > hide #!16 models |
| 13150 | | |
| 13151 | | > show #!18 models |
| 13152 | | |
| 13153 | | > hide #!18 models |
| 13154 | | |
| 13155 | | > show #!15 models |
| 13156 | | |
| 13157 | | > hide #!15 models |
| 13158 | | |
| 13159 | | > show #!15 models |
| 13160 | | |
| 13161 | | > hide #!15 models |
| 13162 | | |
| 13163 | | > select add #2.21 |
| 13164 | | |
| 13165 | | 16 models selected |
| 13166 | | |
| 13167 | | > select subtract #2.21 |
| 13168 | | |
| 13169 | | 15 models selected |
| 13170 | | |
| 13171 | | > select add #2.43 |
| 13172 | | |
| 13173 | | 16 models selected |
| 13174 | | |
| 13175 | | > select add #2.6 |
| 13176 | | |
| 13177 | | 17 models selected |
| 13178 | | |
| 13179 | | > select add #2.7 |
| 13180 | | |
| 13181 | | 18 models selected |
| 13182 | | |
| 13183 | | > select add #2.12 |
| 13184 | | |
| 13185 | | 19 models selected |
| 13186 | | |
| 13187 | | > select add #2.19 |
| 13188 | | |
| 13189 | | 20 models selected |
| 13190 | | |
| 13191 | | > select add #2.14 |
| 13192 | | |
| 13193 | | 21 models selected |
| 13194 | | |
| 13195 | | > select add #2.35 |
| 13196 | | |
| 13197 | | 22 models selected |
| 13198 | | |
| 13199 | | > select add #2.23 |
| 13200 | | |
| 13201 | | 23 models selected |
| 13202 | | |
| 13203 | | > select add #2.24 |
| 13204 | | |
| 13205 | | 24 models selected |
| 13206 | | |
| 13207 | | > select add #2.29 |
| 13208 | | |
| 13209 | | 25 models selected |
| 13210 | | |
| 13211 | | > select add #2.40 |
| 13212 | | |
| 13213 | | 26 models selected |
| 13214 | | |
| 13215 | | > select add #2.36 |
| 13216 | | |
| 13217 | | 27 models selected |
| 13218 | | |
| 13219 | | > select add #2.26 |
| 13220 | | |
| 13221 | | 28 models selected |
| 13222 | | |
| 13223 | | > select add #2.46 |
| 13224 | | |
| 13225 | | 29 models selected |
| 13226 | | |
| 13227 | | > select add #2.38 |
| 13228 | | |
| 13229 | | 30 models selected |
| 13230 | | |
| 13231 | | > show #!15 models |
| 13232 | | |
| 13233 | | > hide #!15 models |
| 13234 | | |
| 13235 | | > show #!15 models |
| 13236 | | |
| 13237 | | > hide #!15 models |
| 13238 | | |
| 13239 | | > select subtract #2.30 |
| 13240 | | |
| 13241 | | 29 models selected |
| 13242 | | |
| 13243 | | > show #!15 models |
| 13244 | | |
| 13245 | | > select add #2.37 |
| 13246 | | |
| 13247 | | 30 models selected |
| 13248 | | |
| 13249 | | > select add #2.9 |
| 13250 | | |
| 13251 | | 31 models selected |
| 13252 | | |
| 13253 | | > select add #2.28 |
| 13254 | | |
| 13255 | | 32 models selected |
| 13256 | | |
| 13257 | | > select add #2.20 |
| 13258 | | |
| 13259 | | 33 models selected |
| 13260 | | |
| 13261 | | > select add #2.13 |
| 13262 | | |
| 13263 | | 34 models selected |
| 13264 | | |
| 13265 | | > select add #2.15 |
| 13266 | | |
| 13267 | | 35 models selected |
| 13268 | | |
| 13269 | | > select add #2.50 |
| 13270 | | |
| 13271 | | 36 models selected |
| 13272 | | |
| 13273 | | > show #!18 models |
| 13274 | | |
| 13275 | | > hide #!18 models |
| 13276 | | |
| 13277 | | Opened 3Xunits_imasked as #17, grid size 240,240,240, pixel 2.1, shown at step |
| 13278 | | 1, values float32 |
| 13279 | | |
| 13280 | | > save /Volumes/Backup-95/Chimera-2023/PflB-PflA-project/Start- |
| 13281 | | > from_June2024/July_2024/Final-version_model/Flo_PflA_Local/1Xunit-no- |
| 13282 | | > topcage.mrc models #17 |
| 13283 | | |
| 13284 | | > select add #2 |
| 13285 | | |
| 13286 | | 52 models selected |
| 13287 | | |
| 13288 | | > select subtract #2 |
| 13289 | | |
| 13290 | | Nothing selected |
| 13291 | | |
| 13292 | | > hide #!2 models |
| 13293 | | |
| 13294 | | > hide #!6 models |
| 13295 | | |
| 13296 | | > show #!18 models |
| 13297 | | |
| 13298 | | > hide #!18.3 models |
| 13299 | | |
| 13300 | | > show #!18.3 models |
| 13301 | | |
| 13302 | | > hide #!18.3 models |
| 13303 | | |
| 13304 | | > show #!18.3 models |
| 13305 | | |
| 13306 | | > hide #!18.3 models |
| 13307 | | |
| 13308 | | > show #!18.3 models |
| 13309 | | |
| 13310 | | > hide #!18.4 models |
| 13311 | | |
| 13312 | | > show #!18.4 models |
| 13313 | | |
| 13314 | | > hide #!18.5 models |
| 13315 | | |
| 13316 | | > show #!18.5 models |
| 13317 | | |
| 13318 | | > hide #!18.6 models |
| 13319 | | |
| 13320 | | > show #!18.6 models |
| 13321 | | |
| 13322 | | > hide #!18.7 models |
| 13323 | | |
| 13324 | | > show #!18.7 models |
| 13325 | | |
| 13326 | | > hide #!18.7 models |
| 13327 | | |
| 13328 | | > hide #!18.8 models |
| 13329 | | |
| 13330 | | > show #!18.8 models |
| 13331 | | |
| 13332 | | > show #!18.7 models |
| 13333 | | |
| 13334 | | > hide #!18.9 models |
| 13335 | | |
| 13336 | | > show #!18.9 models |
| 13337 | | |
| 13338 | | > hide #!18.10 models |
| 13339 | | |
| 13340 | | > show #!18.10 models |
| 13341 | | |
| 13342 | | > hide #!18.11 models |
| 13343 | | |
| 13344 | | > hide #!18.12 models |
| 13345 | | |
| 13346 | | > view Top1 |
| 13347 | | |
| 13348 | | > turn x -50 |
| 13349 | | |
| 13350 | | > view name Tilt50 |
| 13351 | | |
| 13352 | | > turn y 10 |
| 13353 | | |
| 13354 | | [Repeated 3 time(s)] |
| 13355 | | |
| 13356 | | > view Tilt50 |
| 13357 | | |
| 13358 | | > view Top1 |
| 13359 | | |
| 13360 | | > save /Users/shoichi/Desktop/PflAB_local-mono.png supersample 2 |
| 13361 | | > transparentBackground true |
| 13362 | | |
| 13363 | | > view Tilt50 |
| 13364 | | |
| 13365 | | > save /Users/shoichi/Desktop/PflAB_local-mono-tilt50.png supersample 2 |
| 13366 | | > transparentBackground true |
| 13367 | | |
| 13368 | | > turn x -40 |
| 13369 | | |
| 13370 | | > save /Users/shoichi/Desktop/PflAB_local-mono-tilt90.png supersample 2 |
| 13371 | | > transparentBackground true |
| 13372 | | |
| 13373 | | > turn y 90 |
| 13374 | | |
| 13375 | | > turn y -90 |
| 13376 | | |
| 13377 | | [Repeated 1 time(s)] |
| 13378 | | |
| 13379 | | > show #!6 models |
| 13380 | | |
| 13381 | | > view Top1 |
| 13382 | | |
| 13383 | | > turn y -90 |
| 13384 | | |
| 13385 | | [Repeated 3 time(s)] |
| 13386 | | |
| 13387 | | > view Top1 |
| 13388 | | |
| 13389 | | [Repeated 1 time(s)] |
| 13390 | | |
| 13391 | | > turn z -90 |
| 13392 | | |
| 13393 | | [Repeated 4 time(s)] |
| 13394 | | |
| 13395 | | > turn x -50 |
| 13396 | | |
| 13397 | | > hide #!6 models |
| 13398 | | |
| 13399 | | > save /Users/shoichi/Desktop/PflAB_local-mono-fromcage.png supersample 2 |
| 13400 | | > transparentBackground true |
| 13401 | | |
| 13402 | | > save /Users/shoichi/Desktop/PflAB_local-mono-fromcage-zoom.png supersample 2 |
| 13403 | | > transparentBackground true |
| 13404 | | |
| 13405 | | > save /Users/shoichi/Desktop/PflAB_local-mono-fromcage.png supersample 2 |
| 13406 | | > transparentBackground true |
| 13407 | | |
| 13408 | | > show #!1 models |
| 13409 | | |
| 13410 | | > save /Volumes/Backup-95/Chimera-2023/PflB-PflA-project/Start- |
| 13411 | | > from_June2024/July_2024/Final- |
| 13412 | | > version_model/Flo_PflA_Local/For_Figure4_PflAB.cxs includeMaps true |
| 13413 | | |
| 13414 | | ——— End of log from Fri Jul 26 17:21:33 2024 ——— |
| 13415 | | |
| 13416 | | opened ChimeraX session |
| 13417 | | Showing 3Xunits.seg - 51 regions, 51 surfaces |
| 13418 | | |
| 13419 | | > hide #!1 models |
| 13420 | | |
| 13421 | | > show #!1 models |
| 13422 | | |
| 13423 | | > hide #!2 models |
| 13424 | | |
| 13425 | | > hide #!1 models |
| 13426 | | |
| 13427 | | > hide #!18 models |
| 13428 | | |
| 13429 | | > show #!18 models |
| 13430 | | |
| 13431 | | > color #18 #48a9c0ff models |
| 13432 | | |
| 13433 | | > color #18 #4a9ed2ff models |
| 13434 | | |
| 13435 | | > view Top1 |
| 13436 | | |
| 13437 | | > save /Users/shoichi/Desktop/Fig4D-1_08222024.png supersample 2 |
| 13438 | | > transparentBackground true |
| 13439 | | |
| 13440 | | > turn x 90 |
| 13441 | | |
| 13442 | | [Repeated 2 time(s)] |
| 13443 | | |
| 13444 | | > save /Users/shoichi/Desktop/Fig4D-2_08222024.png supersample 2 |
| 13445 | | > transparentBackground true |
| 13446 | | |
| 13447 | | > turn -Y 90 |
| 13448 | | |
| 13449 | | > turn -x 1 |
| 13450 | | |
| 13451 | | > turn -x -1 |
| 13452 | | |
| 13453 | | > turn -z -1 |
| 13454 | | |
| 13455 | | > turn -z 1 |
| 13456 | | |
| 13457 | | [Repeated 9 time(s)] |
| 13458 | | |
| 13459 | | > turn -z -0.5 |
| 13460 | | |
| 13461 | | > view name Fig4E |
| 13462 | | |
| 13463 | | > turn -Y -90 |
| 13464 | | |
| 13465 | | > view name Fig4D2 |
| 13466 | | |
| 13467 | | > turn -x -90 |
| 13468 | | |
| 13469 | | > view name Fig4D1 |
| 13470 | | |
| 13471 | | > save /Users/shoichi/Desktop/Fig4D-1_08222024.png supersample 2 |
| 13472 | | > transparentBackground true |
| 13473 | | |
| 13474 | | > view Fig4D2 |
| 13475 | | |
| 13476 | | > save /Users/shoichi/Desktop/Fig4D-2_08222024.png supersample 2 |
| 13477 | | > transparentBackground true |
| 13478 | | |
| 13479 | | > view Fig4E |
| 13480 | | |
| 13481 | | > save /Users/shoichi/Desktop/Fig4E-1_08222024.png supersample 2 |
| 13482 | | > transparentBackground true |
| 13483 | | |
| 13484 | | > turn x 1 |
| 13485 | | |
| 13486 | | > turn x -1 |
| 13487 | | |
| 13488 | | > turn x 40 |
| 13489 | | |
| 13490 | | > save /Users/shoichi/Desktop/Fig4E-2_08222024.png supersample 2 |
| 13491 | | > transparentBackground true |
| 13492 | | |
| 13493 | | > view name Fig4E2 |
| 13494 | | |
| 13495 | | > view Fig4D1 |
| 13496 | | |
| 13497 | | > hide #!15 models |
| 13498 | | |
| 13499 | | > show #!15 models |
| 13500 | | |
| 13501 | | > show #!4 models |
| 13502 | | |
| 13503 | | > hide #!4 models |
| 13504 | | |
| 13505 | | > show #!6 models |
| 13506 | | |
| 13507 | | > hide #!17 models |
| 13508 | | |
| 13509 | | > save /Users/shoichi/Desktop/Fig4C1.png supersample 2 transparentBackground |
| 13510 | | > true |
| 13511 | | |
| 13512 | | > turn x 50 |
| 13513 | | |
| 13514 | | > turn x -50 |
| 13515 | | |
| 13516 | | [Repeated 1 time(s)] |
| 13517 | | |
| 13518 | | > save /Users/shoichi/Desktop/Fig4C2.png supersample 2 transparentBackground |
| 13519 | | > true |
| 13520 | | |
| 13521 | | > save /Volumes/Backup-95/Chimera-2023/PflB-PflA-project/Start- |
| 13522 | | > from_June2024/July_2024/Final- |
| 13523 | | > version_model/Flo_PflA_Local/For_Figure4_PflAB.cxs includeMaps true |
| 13524 | | |
| 13525 | | ——— End of log from Thu Aug 22 11:39:22 2024 ——— |
| 13526 | | |
| 13527 | | opened ChimeraX session |
| 13528 | | Showing 3Xunits.seg - 51 regions, 51 surfaces |
| 13529 | | |
| 13530 | | > hide #!2 models |
| 13531 | | |
| 13532 | | > hide #!6 models |
| 13533 | | |
| 13534 | | > show #!6 models |
| 13535 | | |
| 13536 | | > hide #!6 models |
| 13537 | | |
| 13538 | | > hide #!15 models |
| 13539 | | |
| 13540 | | > show #!15 models |
| 13541 | | |
| 13542 | | > show #!17 models |
| 13543 | | |
| 13544 | | > hide #!18 models |
| 13545 | | |
| 13546 | | > show #!18 models |
| 13547 | | |
| 13548 | | > hide #17.1 models |
| 13549 | | |
| 13550 | | > show #17.1 models |
| 13551 | | |
| 13552 | | > hide #!15 models |
| 13553 | | |
| 13554 | | > show #!15 models |
| 13555 | | |
| 13556 | | > hide #!18 models |
| 13557 | | |
| 13558 | | > show #!2 models |
| 13559 | | |
| 13560 | | > hide #!15 models |
| 13561 | | |
| 13562 | | > hide #!17 models |
| 13563 | | |
| 13564 | | > hide #17.1 models |
| 13565 | | |
| 13566 | | > show #!15 models |
| 13567 | | |
| 13568 | | > hide #!15 models |
| 13569 | | |
| 13570 | | > select #2.6 |
| 13571 | | |
| 13572 | | 1 model selected |
| 13573 | | |
| 13574 | | > select add #2.47 |
| 13575 | | |
| 13576 | | 2 models selected |
| 13577 | | |
| 13578 | | > select add #2.37 |
| 13579 | | |
| 13580 | | 3 models selected |
| 13581 | | |
| 13582 | | > select clear |
| 13583 | | |
| 13584 | | > select #2.30 |
| 13585 | | |
| 13586 | | 1 model selected |
| 13587 | | |
| 13588 | | > select add #2.45 |
| 13589 | | |
| 13590 | | 2 models selected |
| 13591 | | |
| 13592 | | > select add #2.12 |
| 13593 | | |
| 13594 | | 3 models selected |
| 13595 | | |
| 13596 | | > select add #2.33 |
| 13597 | | |
| 13598 | | 4 models selected |
| 13599 | | |
| 13600 | | > select add #2.50 |
| 13601 | | |
| 13602 | | 5 models selected |
| 13603 | | |
| 13604 | | > select add #2.21 |
| 13605 | | |
| 13606 | | 6 models selected |
| 13607 | | |
| 13608 | | > select add #2.16 |
| 13609 | | |
| 13610 | | 7 models selected |
| 13611 | | |
| 13612 | | > select add #2.15 |
| 13613 | | |
| 13614 | | 8 models selected |
| 13615 | | |
| 13616 | | > select add #2.24 |
| 13617 | | |
| 13618 | | 9 models selected |
| 13619 | | |
| 13620 | | > select add #2.26 |
| 13621 | | |
| 13622 | | 10 models selected |
| 13623 | | |
| 13624 | | > select add #2.18 |
| 13625 | | |
| 13626 | | 11 models selected |
| 13627 | | |
| 13628 | | > select add #2.19 |
| 13629 | | |
| 13630 | | 12 models selected |
| 13631 | | |
| 13632 | | > select add #2.9 |
| 13633 | | |
| 13634 | | 13 models selected |
| 13635 | | |
| 13636 | | > select add #2.40 |
| 13637 | | |
| 13638 | | 14 models selected |
| 13639 | | |
| 13640 | | > select add #2.10 |
| 13641 | | |
| 13642 | | 15 models selected |
| 13643 | | |
| 13644 | | > select add #2.8 |
| 13645 | | |
| 13646 | | 16 models selected |
| 13647 | | |
| 13648 | | > select add #2.14 |
| 13649 | | |
| 13650 | | 17 models selected |
| 13651 | | |
| 13652 | | > select add #2.41 |
| 13653 | | |
| 13654 | | 18 models selected |
| 13655 | | |
| 13656 | | > select add #2.46 |
| 13657 | | |
| 13658 | | 19 models selected |
| 13659 | | |
| 13660 | | > select add #2.3 |
| 13661 | | |
| 13662 | | 20 models selected |
| 13663 | | |
| 13664 | | > select add #2.7 |
| 13665 | | |
| 13666 | | 21 models selected |
| 13667 | | |
| 13668 | | > select add #2.51 |
| 13669 | | |
| 13670 | | 22 models selected |
| 13671 | | |
| 13672 | | > select add #2.48 |
| 13673 | | |
| 13674 | | 23 models selected |
| 13675 | | |
| 13676 | | > select add #2.20 |
| 13677 | | |
| 13678 | | 24 models selected |
| 13679 | | |
| 13680 | | > select add #2.47 |
| 13681 | | |
| 13682 | | 25 models selected |
| 13683 | | |
| 13684 | | > select subtract #2.47 |
| 13685 | | |
| 13686 | | 24 models selected |
| 13687 | | |
| 13688 | | > select add #2.25 |
| 13689 | | |
| 13690 | | 25 models selected |
| 13691 | | |
| 13692 | | > select add #2.13 |
| 13693 | | |
| 13694 | | 26 models selected |
| 13695 | | |
| 13696 | | > select add #2.42 |
| 13697 | | |
| 13698 | | 27 models selected |
| 13699 | | |
| 13700 | | > select add #2.38 |
| 13701 | | |
| 13702 | | 28 models selected |
| 13703 | | |
| 13704 | | > select add #2.35 |
| 13705 | | |
| 13706 | | 29 models selected |
| 13707 | | |
| 13708 | | > select add #2.34 |
| 13709 | | |
| 13710 | | 30 models selected |
| 13711 | | |
| 13712 | | > select add #2.17 |
| 13713 | | |
| 13714 | | 31 models selected |
| 13715 | | |
| 13716 | | > select add #2.29 |
| 13717 | | |
| 13718 | | 32 models selected |
| 13719 | | |
| 13720 | | > show #!15 models |
| 13721 | | |
| 13722 | | > hide #!15 models |
| 13723 | | |
| 13724 | | > show #!15 models |
| 13725 | | |
| 13726 | | > hide #!15 models |
| 13727 | | |
| 13728 | | Grouped 32 regions |
| 13729 | | |
| 13730 | | > select add #2.22 |
| 13731 | | |
| 13732 | | 2 models selected |
| 13733 | | |
| 13734 | | > show #!15 models |
| 13735 | | |
| 13736 | | > hide #!15 models |
| 13737 | | |
| 13738 | | The cached device pixel ratio value was stale on window expose. Please file a |
| 13739 | | QTBUG which explains how to reproduce. |
| 13740 | | |
| 13741 | | Opened 3Xunits_imasked as #19, grid size 240,240,240, pixel 2.1, shown at step |
| 13742 | | 1, values float32 |
| 13743 | | |
| 13744 | | > hide #!19 models |
| 13745 | | |
| 13746 | | > show #!19 models |
| 13747 | | |
| 13748 | | > save /Volumes/Backup-95/Chimera-2023/PflB-PflA-project/Start- |
| 13749 | | > from_June2024/July_2024/Final-version_model/Flo_PflA_Local/New-1xPflAB.cxs |
| 13750 | | > includeMaps true |
| 13751 | | |
| 13752 | | The cached device pixel ratio value was stale on window expose. Please file a |
| 13753 | | QTBUG which explains how to reproduce. |
| 13754 | | |
| 13755 | | Segmenting 3Xunits_imasked, density threshold 0.184695 |
| 13756 | | Showing 18 region surfaces |
| 13757 | | 89 watershed regions, grouped to 18 regions |
| 13758 | | Showing 3Xunits_imasked.seg - 18 regions, 18 surfaces |
| 13759 | | |
| 13760 | | > select #2.14 |
| 13761 | | |
| 13762 | | 1 model selected |
| 13763 | | |
| 13764 | | > select add #2.18 |
| 13765 | | |
| 13766 | | 2 models selected |
| 13767 | | |
| 13768 | | > select add #2.16 |
| 13769 | | |
| 13770 | | 3 models selected |
| 13771 | | Grouped 3 regions |
| 13772 | | |
| 13773 | | > select clear |
| 13774 | | |
| 13775 | | > select #2.11 |
| 13776 | | |
| 13777 | | 1 model selected |
| 13778 | | Ungrouped to 2 regions |
| 13779 | | [Repeated 1 time(s)]Ungrouped to 0 regions |
| 13780 | | |
| 13781 | | > select #2.19 |
| 13782 | | |
| 13783 | | 1 model selected |
| 13784 | | |
| 13785 | | > select add #2.14 |
| 13786 | | |
| 13787 | | 2 models selected |
| 13788 | | |
| 13789 | | > select clear |
| 13790 | | |
| 13791 | | > select #2.14 |
| 13792 | | |
| 13793 | | 1 model selected |
| 13794 | | Opened 3Xunits_imasked_imasked as #20, grid size 240,240,240, pixel 2.1, shown |
| 13795 | | at step 1, values float32 |
| 13796 | | |
| 13797 | | The cached device pixel ratio value was stale on window expose. Please file a |
| 13798 | | QTBUG which explains how to reproduce. |
| 13799 | | |
| 13800 | | > save /Volumes/Backup-95/Chimera-2023/PflB-PflA-project/Start- |
| 13801 | | > from_June2024/July_2024/Final-version_model/Flo_PflA_Local/1xPflAB-New.mrc |
| 13802 | | > models #19 |
| 13803 | | |
| 13804 | | The cached device pixel ratio value was stale on window expose. Please file a |
| 13805 | | QTBUG which explains how to reproduce. |
| 13806 | | |
| 13807 | | > save /Volumes/Backup-95/Chimera-2023/PflB-PflA-project/Start- |
| 13808 | | > from_June2024/July_2024/Final-version_model/Flo_PflA_Local/1xPflAB-New-no- |
| 13809 | | > cyt-cage.mrc models #20 |
| 13810 | | |
| 13811 | | > hide #!19 models |
| 13812 | | |
| 13813 | | > hide #!2 models |
| 13814 | | |
| 13815 | | > select add #2 |
| 13816 | | |
| 13817 | | 19 models selected |
| 13818 | | |
| 13819 | | > select subtract #2 |
| 13820 | | |
| 13821 | | Nothing selected |
| 13822 | | |
| 13823 | | > show #!15 models |
| 13824 | | |
| 13825 | | > color #20 #72727240 models |
| 13826 | | |
| 13827 | | > view orient |
| 13828 | | |
| 13829 | | [Repeated 1 time(s)] |
| 13830 | | |
| 13831 | | > view name Fig4C |
| 13832 | | |
| 13833 | | > ls |
| 13834 | | |
| 13835 | | Unknown command: ls |
| 13836 | | |
| 13837 | | > save /Users/shoichitachiyama/Desktop/Fig4Ca_09042024.png supersample 2 |
| 13838 | | > transparentBackground true |
| 13839 | | |
| 13840 | | [Repeated 1 time(s)] |
| 13841 | | |
| 13842 | | > view name Fig4C |
| 13843 | | |
| 13844 | | > turn x 50 |
| 13845 | | |
| 13846 | | > turn x -50 |
| 13847 | | |
| 13848 | | [Repeated 1 time(s)] |
| 13849 | | |
| 13850 | | > save /Users/shoichitachiyama/Desktop/Fig4Cb_09042024.png supersample 2 |
| 13851 | | > transparentBackground true |
| 13852 | | |
| 13853 | | > show #!8 models |
| 13854 | | |
| 13855 | | > hide #!8 models |
| 13856 | | |
| 13857 | | > show #!17 models |
| 13858 | | |
| 13859 | | > hide #!17 models |
| 13860 | | |
| 13861 | | > show #17.1 models |
| 13862 | | |
| 13863 | | > hide #17.1 models |
| 13864 | | |
| 13865 | | > save /Users/shoichitachiyama/Desktop/Fig4Cb_09042024.png supersample 2 |
| 13866 | | > transparentBackground true |
| 13867 | | |
| 13868 | | > hide #!20 models |
| 13869 | | |
| 13870 | | > show #!20 models |
| 13871 | | |
| 13872 | | > show #!8 models |
| 13873 | | |
| 13874 | | > hide #!8 models |
| 13875 | | |
| 13876 | | > save /Volumes/Backup-95/Chimera-2023/PflB-PflA-project/Start- |
| 13877 | | > from_June2024/July_2024/Final- |
| 13878 | | > version_model/Flo_PflA_Local/For_Figure4_PflAB_Sep2024.cxs includeMaps true |
| 13879 | | |
| 13880 | | ——— End of log from Wed Sep 4 18:57:11 2024 ——— |
| 13881 | | |
| 13882 | | opened ChimeraX session |
| 13883 | | Showing 3Xunits_imasked.seg - 18 regions, 18 surfaces |
| 13884 | | |
| 13885 | | > hide #!2 models |
| 13886 | | |
| 13887 | | > show #!8 models |
| 13888 | | |
| 13889 | | The cached device pixel ratio value was stale on window expose. Please file a |
| 13890 | | QTBUG which explains how to reproduce. |
| 13891 | | |
| 13892 | | Segmenting 3XfliL.mrc, density threshold 0.184695 |
| 13893 | | Showing 9 region surfaces |
| 13894 | | 56 watershed regions, grouped to 9 regions |
| 13895 | | Showing 3XfliL.seg - 9 regions, 9 surfaces |
| 13896 | | |
| 13897 | | > select #2.1 |
| 13898 | | |
| 13899 | | 1 model selected |
| 13900 | | |
| 13901 | | > select add #2.8 |
| 13902 | | |
| 13903 | | 2 models selected |
| 13904 | | |
| 13905 | | > select add #2.6 |
| 13906 | | |
| 13907 | | 3 models selected |
| 13908 | | |
| 13909 | | The cached device pixel ratio value was stale on window expose. Please file a |
| 13910 | | QTBUG which explains how to reproduce. |
| 13911 | | |
| 13912 | | Opened 3XfliL_imasked as #21, grid size 240,240,240, pixel 2.1, shown at step |
| 13913 | | 1, values float32 |
| 13914 | | |
| 13915 | | The cached device pixel ratio value was stale on window expose. Please file a |
| 13916 | | QTBUG which explains how to reproduce. |
| 13917 | | |
| 13918 | | > save /Volumes/Backup-95/Chimera-2023/PflB-PflA-project/Start- |
| 13919 | | > from_June2024/July_2024/Final-version_model/Flo_PflA_Local/2xFliL.mrc models |
| 13920 | | > #21 |
| 13921 | | |
| 13922 | | > close #2 |
| 13923 | | |
| 13924 | | > hide #!8 models |
| 13925 | | |
| 13926 | | > open /Volumes/Backup-95/Chimera-2023/PflB-PflA-project/Start- |
| 13927 | | > from_June2024/July_2024/Final-version_model/Flo_PflA_Local/Stator- |
| 13928 | | > complexb.pdb |
| 13929 | | |
| 13930 | | Summary of feedback from opening /Volumes/Backup-95/Chimera-2023/PflB-PflA- |
| 13931 | | project/Start-from_June2024/July_2024/Final- |
| 13932 | | version_model/Flo_PflA_Local/Stator-complexb.pdb |
| 13933 | | --- |
| 13934 | | warnings | Start residue of secondary structure not found: HELIX 1 1 TYRA0 183 ASPA0 196 1 14 |
| 13935 | | Start residue of secondary structure not found: HELIX 2 2 TYRA0 200 ASNA0 213 |
| 13936 | | 1 14 |
| 13937 | | Start residue of secondary structure not found: HELIX 3 3 LYSA0 220 LEUA0 234 |
| 13938 | | 1 15 |
| 13939 | | Start residue of secondary structure not found: HELIX 4 4 LYSA0 238 ASNA0 251 |
| 13940 | | 1 14 |
| 13941 | | Start residue of secondary structure not found: HELIX 5 5 ILEA0 258 GLUA0 271 |
| 13942 | | 1 14 |
| 13943 | | 919 messages similar to the above omitted |
| 13944 | | |
| 13945 | | Chain information for Stator-complexb.pdb |
| 13946 | | --- |
| 13947 | | Chain | Description |
| 13948 | | 2.1/? | No description available |
| 13949 | | 2.2/C 2.3/D 2.4/E 2.5/F 2.6/G 2.7/H 2.8/I 2.9/J 2.10/K 2.11/L | No description available |
| 13950 | | 2.22/K | No description available |
| 13951 | | 2.22/L | No description available |
| 13952 | | 2.12/M 2.13/N 2.14/O 2.15/P 2.16/Q 2.17/R 2.18/S 2.19/T 2.20/U 2.21/V | No description available |
| 13953 | | |
| 13954 | | |
| 13955 | | > open /Volumes/Backup-95/Chimera-2023/PflB-PflA-project/Start- |
| 13956 | | > from_June2024/July_2024/Final-version_model/Flo_PflA_Local/Stator- |
| 13957 | | > complexb.pdb |
| 13958 | | |
| 13959 | | Summary of feedback from opening /Volumes/Backup-95/Chimera-2023/PflB-PflA- |
| 13960 | | project/Start-from_June2024/July_2024/Final- |
| 13961 | | version_model/Flo_PflA_Local/Stator-complexb.pdb |
| 13962 | | --- |
| 13963 | | warnings | Start residue of secondary structure not found: HELIX 1 1 TYRA0 183 ASPA0 196 1 14 |
| 13964 | | Start residue of secondary structure not found: HELIX 2 2 TYRA0 200 ASNA0 213 |
| 13965 | | 1 14 |
| 13966 | | Start residue of secondary structure not found: HELIX 3 3 LYSA0 220 LEUA0 234 |
| 13967 | | 1 15 |
| 13968 | | Start residue of secondary structure not found: HELIX 4 4 LYSA0 238 ASNA0 251 |
| 13969 | | 1 14 |
| 13970 | | Start residue of secondary structure not found: HELIX 5 5 ILEA0 258 GLUA0 271 |
| 13971 | | 1 14 |
| 13972 | | 919 messages similar to the above omitted |
| 13973 | | |
| 13974 | | Chain information for Stator-complexb.pdb |
| 13975 | | --- |
| 13976 | | Chain | Description |
| 13977 | | 22.1/? | No description available |
| 13978 | | 22.2/C 22.3/D 22.4/E 22.5/F 22.6/G 22.7/H 22.8/I 22.9/J 22.10/K 22.11/L | No description available |
| 13979 | | 22.22/K | No description available |
| 13980 | | 22.22/L | No description available |
| 13981 | | 22.12/M 22.13/N 22.14/O 22.15/P 22.16/Q 22.17/R 22.18/S 22.19/T 22.20/U 22.21/V | No description available |
| 13982 | | |
| 13983 | | |
| 13984 | | > select add #21 |
| 13985 | | |
| 13986 | | 2 models selected |
| 13987 | | |
| 13988 | | > show #!6 models |
| 13989 | | |
| 13990 | | > view orient |
| 13991 | | |
| 13992 | | > view matrix models #21,1,0,0,-0.48533,0,1,0,4.9028,0,0,1,0 |
| 13993 | | |
| 13994 | | > undo |
| 13995 | | |
| 13996 | | > select subtract #21 |
| 13997 | | |
| 13998 | | Nothing selected |
| 13999 | | |
| 14000 | | > select add #22 |
| 14001 | | |
| 14002 | | 23554 atoms, 23886 bonds, 2988 residues, 23 models selected |
| 14003 | | |
| 14004 | | > select add #2 |
| 14005 | | |
| 14006 | | 47108 atoms, 47772 bonds, 5976 residues, 46 models selected |
| 14007 | | |
| 14008 | | > select subtract #2 |
| 14009 | | |
| 14010 | | 23554 atoms, 23886 bonds, 2988 residues, 23 models selected |
| 14011 | | |
| 14012 | | > view matrix models #22,1,0,0,-14.173,0,1,0,103.19,0,0,1,0 |
| 14013 | | |
| 14014 | | > view matrix models #22,1,0,0,-15.419,0,1,0,106.11,0,0,1,-1.9686 |
| 14015 | | |
| 14016 | | > select add #2 |
| 14017 | | |
| 14018 | | 47108 atoms, 47772 bonds, 5976 residues, 46 models selected |
| 14019 | | |
| 14020 | | > select subtract #2 |
| 14021 | | |
| 14022 | | 23554 atoms, 23886 bonds, 2988 residues, 23 models selected |
| 14023 | | |
| 14024 | | > hide #2.11 models |
| 14025 | | |
| 14026 | | > show #2.11 models |
| 14027 | | |
| 14028 | | > hide #2.12 models |
| 14029 | | |
| 14030 | | > show #2.12 models |
| 14031 | | |
| 14032 | | > hide #2.21 models |
| 14033 | | |
| 14034 | | > show #2.21 models |
| 14035 | | |
| 14036 | | > hide #2.21 models |
| 14037 | | |
| 14038 | | > hide #2.20 models |
| 14039 | | |
| 14040 | | > hide #2.19 models |
| 14041 | | |
| 14042 | | > hide #2.18 models |
| 14043 | | |
| 14044 | | > hide #2.17 models |
| 14045 | | |
| 14046 | | > hide #2.16 models |
| 14047 | | |
| 14048 | | > hide #2.15 models |
| 14049 | | |
| 14050 | | > hide #2.14 models |
| 14051 | | |
| 14052 | | > hide #2.13 models |
| 14053 | | |
| 14054 | | > hide #2.12 models |
| 14055 | | |
| 14056 | | > close #2.12-21 |
| 14057 | | |
| 14058 | | > hide #22.12 models |
| 14059 | | |
| 14060 | | > hide #22.13 models |
| 14061 | | |
| 14062 | | > hide #22.14 models |
| 14063 | | |
| 14064 | | > hide #22.15 models |
| 14065 | | |
| 14066 | | > hide #22.16 models |
| 14067 | | |
| 14068 | | > hide #22.17 models |
| 14069 | | |
| 14070 | | > hide #22.18 models |
| 14071 | | |
| 14072 | | > hide #22.19 models |
| 14073 | | |
| 14074 | | > hide #22.20 models |
| 14075 | | |
| 14076 | | > hide #22.21 models |
| 14077 | | |
| 14078 | | > close #22.12-21 |
| 14079 | | |
| 14080 | | > select subtract #22 |
| 14081 | | |
| 14082 | | Nothing selected |
| 14083 | | |
| 14084 | | > select add #22 |
| 14085 | | |
| 14086 | | 21694 atoms, 22006 bonds, 2748 residues, 13 models selected |
| 14087 | | |
| 14088 | | > select subtract #22 |
| 14089 | | |
| 14090 | | Nothing selected |
| 14091 | | |
| 14092 | | > select add #2 |
| 14093 | | |
| 14094 | | 21694 atoms, 22006 bonds, 2748 residues, 13 models selected |
| 14095 | | |
| 14096 | | > ui mousemode right "rotate selected models" |
| 14097 | | |
| 14098 | | > view matrix models |
| 14099 | | > #2,0.99996,-0.0049032,-0.0077954,-0.63495,0.0050391,0.99983,0.017514,1.0297,0.0077082,-0.017552,0.99982,-0.63371 |
| 14100 | | |
| 14101 | | > ui mousemode right "translate selected models" |
| 14102 | | |
| 14103 | | > view matrix models |
| 14104 | | > #2,0.99996,-0.0049032,-0.0077954,-0.92663,0.0050391,0.99983,0.017514,1.3841,0.0077082,-0.017552,0.99982,-1.1098 |
| 14105 | | |
| 14106 | | > select subtract #2 |
| 14107 | | |
| 14108 | | Nothing selected |
| 14109 | | |
| 14110 | | > hide #!6 models |
| 14111 | | |
| 14112 | | > color #2 #b7a359ff models |
| 14113 | | |
| 14114 | | > color #22 #b7a359ff models |
| 14115 | | |
| 14116 | | > select add #22.22 |
| 14117 | | |
| 14118 | | 4099 atoms, 4171 bonds, 518 residues, 1 model selected |
| 14119 | | |
| 14120 | | > select subtract #22.22 |
| 14121 | | |
| 14122 | | Nothing selected |
| 14123 | | |
| 14124 | | > hide #22.22 models |
| 14125 | | |
| 14126 | | > show #22.22 models |
| 14127 | | |
| 14128 | | > color #22.22 #905d12ff models |
| 14129 | | |
| 14130 | | > color #2.22 #905d12ff models |
| 14131 | | |
| 14132 | | > color #2.1 #a69b32ff models |
| 14133 | | |
| 14134 | | > color #22.1 #a69b32ff models |
| 14135 | | |
| 14136 | | > select add #22 |
| 14137 | | |
| 14138 | | 21694 atoms, 22006 bonds, 2748 residues, 13 models selected |
| 14139 | | |
| 14140 | | > select add #2 |
| 14141 | | |
| 14142 | | 43388 atoms, 44012 bonds, 5496 residues, 26 models selected |
| 14143 | | |
| 14144 | | > hide sel cartoons |
| 14145 | | |
| 14146 | | > show sel surfaces |
| 14147 | | |
| 14148 | | > select clear |
| 14149 | | |
| 14150 | | > color #21 #72727240 models |
| 14151 | | |
| 14152 | | Cell requested for row 0 is out of bounds for table with 34 rows! Resizing |
| 14153 | | table model. |
| 14154 | | |
| 14155 | | > show #!16 models |
| 14156 | | |
| 14157 | | > hide #!16 models |
| 14158 | | |
| 14159 | | > show #!18 models |
| 14160 | | |
| 14161 | | > view orient |
| 14162 | | |
| 14163 | | > view Fig4C1 |
| 14164 | | |
| 14165 | | Expected an objects specifier or a view name or a keyword |
| 14166 | | |
| 14167 | | > view Fig4Ca |
| 14168 | | |
| 14169 | | Expected an objects specifier or a view name or a keyword |
| 14170 | | |
| 14171 | | > view Fig4C |
| 14172 | | |
| 14173 | | > save /Users/shoichitachiyama/Desktop/Fig4CD_09042024.png supersample 2 |
| 14174 | | > transparentBackground true |
| 14175 | | |
| 14176 | | > save /Users/shoichitachiyama/Desktop/Fig4D_09042024.png supersample 2 |
| 14177 | | > transparentBackground true |
| 14178 | | |
| 14179 | | > view Fig5Cb |
| 14180 | | |
| 14181 | | Expected an objects specifier or a view name or a keyword |
| 14182 | | |
| 14183 | | > view Fig5C2 |
| 14184 | | |
| 14185 | | Expected an objects specifier or a view name or a keyword |
| 14186 | | |
| 14187 | | > turn x 90 |
| 14188 | | |
| 14189 | | [Repeated 3 time(s)] |
| 14190 | | |
| 14191 | | > turn x 45 |
| 14192 | | |
| 14193 | | > turn x -45 |
| 14194 | | |
| 14195 | | [Repeated 1 time(s)] |
| 14196 | | |
| 14197 | | > view Fig5D |
| 14198 | | |
| 14199 | | Expected an objects specifier or a view name or a keyword |
| 14200 | | |
| 14201 | | > view Fig4C |
| 14202 | | |
| 14203 | | > turn x -90 |
| 14204 | | |
| 14205 | | > view Fig4C |
| 14206 | | |
| 14207 | | > turn x -90 |
| 14208 | | |
| 14209 | | > save /Users/shoichitachiyama/Desktop/Fig4Db_09042024.png supersample 2 |
| 14210 | | > transparentBackground true |
| 14211 | | |
| 14212 | | > view Fig4C |
| 14213 | | |
| 14214 | | > turn x -90 |
| 14215 | | |
| 14216 | | > turn y -90 |
| 14217 | | |
| 14218 | | > save /Users/shoichitachiyama/Desktop/Fig4Dc_09042024.png supersample 2 |
| 14219 | | > transparentBackground true |
| 14220 | | |
| 14221 | | > turn x -40 |
| 14222 | | |
| 14223 | | > turn x 40 |
| 14224 | | |
| 14225 | | [Repeated 1 time(s)] |
| 14226 | | |
| 14227 | | > save /Users/shoichitachiyama/Desktop/Fig4Dd_09042024.png supersample 2 |
| 14228 | | > transparentBackground true |
| 14229 | | |
| 14230 | | > save /Volumes/Backup-95/Chimera-2023/PflB-PflA-project/Start- |
| 14231 | | > from_June2024/July_2024/Final- |
| 14232 | | > version_model/Flo_PflA_Local/For_Figure4_PflAB_Sep2024.cxs includeMaps true |
| 14233 | | |
| 14234 | | ——— End of log from Wed Sep 4 20:03:04 2024 ——— |
| 14235 | | |
| 14236 | | opened ChimeraX session |
| 14237 | | |
| 14238 | | > hide #!2 models |
| 14239 | | |
| 14240 | | > show #!2 models |
| 14241 | | |
| 14242 | | > hide #!15 models |
| 14243 | | |
| 14244 | | > show #!15 models |
| 14245 | | |
| 14246 | | > hide #!17 models |
| 14247 | | |
| 14248 | | > hide #!18 models |
| 14249 | | |
| 14250 | | > show #!18 models |
| 14251 | | |
| 14252 | | > hide #!20 models |
| 14253 | | |
| 14254 | | > hide #!21 models |
| 14255 | | |
| 14256 | | > hide #!22 models |
| 14257 | | |
| 14258 | | > show #!22 models |
| 14259 | | |
| 14260 | | > view orient |
| 14261 | | |
| 14262 | | > save /Users/shoichi/Desktop/HP-Fig4D_09172024.png supersample 2 |
| 14263 | | > transparentBackground true |
| 14264 | | |
| 14265 | | > turn x -90 |
| 14266 | | |
| 14267 | | > save /Users/shoichi/Desktop/HP-Fig4D2_09172024.png supersample 2 |
| 14268 | | > transparentBackground true |
| 14269 | | |
| 14270 | | > view orient |
| 14271 | | |
| 14272 | | > hide #!18 models |
| 14273 | | |
| 14274 | | > hide #!22 models |
| 14275 | | |
| 14276 | | > hide #!2 models |
| 14277 | | |
| 14278 | | > show #!20 models |
| 14279 | | |
| 14280 | | > hide #!15 models |
| 14281 | | |
| 14282 | | > show #!15 models |
| 14283 | | |
| 14284 | | > hide #!15 models |
| 14285 | | |
| 14286 | | > show #!15 models |
| 14287 | | |
| 14288 | | > show #!19 models |
| 14289 | | |
| 14290 | | > hide #!19 models |
| 14291 | | |
| 14292 | | > hide #!20 models |
| 14293 | | |
| 14294 | | > show #!19 models |
| 14295 | | |
| 14296 | | > hide #!19 models |
| 14297 | | |
| 14298 | | > show #!19 models |
| 14299 | | |
| 14300 | | > hide #!19 models |
| 14301 | | |
| 14302 | | > show #!14 models |
| 14303 | | |
| 14304 | | > hide #!14 models |
| 14305 | | |
| 14306 | | > hide #!15 models |
| 14307 | | |
| 14308 | | > show #!15 models |
| 14309 | | |
| 14310 | | > show #!6 models |
| 14311 | | |
| 14312 | | > volume #6 level 0.03792 |
| 14313 | | |
| 14314 | | > hide #!6 models |
| 14315 | | |
| 14316 | | > show #!19 models |
| 14317 | | |
| 14318 | | > show #!1 models |
| 14319 | | |
| 14320 | | > hide #!1 models |
| 14321 | | |
| 14322 | | > show #!1 models |
| 14323 | | |
| 14324 | | > hide #!1 models |
| 14325 | | |
| 14326 | | > show #!1 models |
| 14327 | | |
| 14328 | | > color #1 #b2b2b283 models |
| 14329 | | |
| 14330 | | > hide #!1 models |
| 14331 | | |
| 14332 | | > show #!1 models |
| 14333 | | |
| 14334 | | > hide #!1 models |
| 14335 | | |
| 14336 | | > show #!1 models |
| 14337 | | |
| 14338 | | > hide #!1 models |
| 14339 | | |
| 14340 | | > show #!1 models |
| 14341 | | |
| 14342 | | > hide #!1 models |
| 14343 | | |
| 14344 | | > show #!1 models |
| 14345 | | |
| 14346 | | > hide #!19 models |
| 14347 | | |
| 14348 | | > show #!19 models |
| 14349 | | |
| 14350 | | > hide #!19 models |
| 14351 | | |
| 14352 | | > hide #!1 models |
| 14353 | | |
| 14354 | | > show #!20 models |
| 14355 | | |
| 14356 | | > select add #15 |
| 14357 | | |
| 14358 | | 38799 atoms, 39588 bonds, 4776 residues, 10 models selected |
| 14359 | | |
| 14360 | | > hide sel & #!15.2,4,6-7 surfaces |
| 14361 | | |
| 14362 | | > show sel & #!15.2,4,6-7 cartoons |
| 14363 | | |
| 14364 | | > show sel & #!15.2,4,6-7 surfaces |
| 14365 | | |
| 14366 | | > ui mousemode right "translate selected models" |
| 14367 | | |
| 14368 | | > select subtract #15 |
| 14369 | | |
| 14370 | | 4 models selected |
| 14371 | | |
| 14372 | | > show #!14 models |
| 14373 | | |
| 14374 | | > hide #!14 models |
| 14375 | | |
| 14376 | | > show #!14 models |
| 14377 | | |
| 14378 | | > hide #!14 models |
| 14379 | | |
| 14380 | | > show #!12 models |
| 14381 | | |
| 14382 | | > hide #!12 models |
| 14383 | | |
| 14384 | | > show #!13 models |
| 14385 | | |
| 14386 | | > hide #!13 models |
| 14387 | | |
| 14388 | | > show #!6 models |
| 14389 | | |
| 14390 | | > hide #!6 models |
| 14391 | | |
| 14392 | | > select add #20 |
| 14393 | | |
| 14394 | | 2 models selected |
| 14395 | | |
| 14396 | | > select subtract #20 |
| 14397 | | |
| 14398 | | Nothing selected |
| 14399 | | |
| 14400 | | > select add #20 |
| 14401 | | |
| 14402 | | 2 models selected |
| 14403 | | |
| 14404 | | > select subtract #20 |
| 14405 | | |
| 14406 | | Nothing selected |
| 14407 | | |
| 14408 | | > show #!6 models |
| 14409 | | |
| 14410 | | > hide #!15 models |
| 14411 | | |
| 14412 | | > ui tool show "Segment Map" |
| 14413 | | |
| 14414 | | > hide #!20 models |
| 14415 | | |
| 14416 | | The cached device pixel ratio value was stale on window expose. Please file a |
| 14417 | | QTBUG which explains how to reproduce. |
| 14418 | | |
| 14419 | | Segmenting 3Xunits.mrc, density threshold 0.037925 |
| 14420 | | Showing 318 region surfaces |
| 14421 | | 26453 watershed regions, grouped to 318 regions |
| 14422 | | Showing 3Xunits.seg - 318 regions, 318 surfaces |
| 14423 | | Drag select of 31808, 15646 of 51436 triangles, 31845, 10703 of 26232 |
| 14424 | | triangles, 31801, 11883 of 25260 triangles, 31805, 31816, 31757, 31835, 7743 |
| 14425 | | of 20008 triangles, 31665, 1005 of 18676 triangles, 31826, 11641 of 19392 |
| 14426 | | triangles, 31711, 3506 of 17600 triangles, 31789, 8007 of 16980 triangles, |
| 14427 | | 31833, 9323 of 17928 triangles, 31672, 31815, 10093 of 17432 triangles, 31753, |
| 14428 | | 31736, 5704 of 17348 triangles, 31828, 11195 of 17232 triangles, 31842, 8537 |
| 14429 | | of 16596 triangles, 31851, 9605 of 16580 triangles, 31836, 9456 of 15488 |
| 14430 | | triangles, 31745, 31661, 31817, 31790, 6439 of 13600 triangles, 31853, 288 of |
| 14431 | | 12348 triangles, 31803, 4501 of 14200 triangles, 31775, 8083 of 13516 |
| 14432 | | triangles, 31673, 6794 of 12616 triangles, 31806, 31618, 8406 of 10620 |
| 14433 | | triangles, 31579, 7487 of 11588 triangles, 31748, 7457 of 11728 triangles, |
| 14434 | | 31717, 31776, 7683 of 11900 triangles, 31715, 7583 of 11552 triangles, 31841, |
| 14435 | | 6433 of 11336 triangles, 30874, 5372 of 10376 triangles, 31691, 4405 of 10484 |
| 14436 | | triangles, 31694, 6562 of 9188 triangles, 31864, 6686 of 10620 triangles, |
| 14437 | | 31802, 4554 of 9644 triangles, 31659, 4942 of 10672 triangles, 31539, 30901, |
| 14438 | | 4075 of 8316 triangles, 31832, 4954 of 9116 triangles, 31601, 30837, 7063 of |
| 14439 | | 9164 triangles, 31859, 5346 of 9508 triangles, 30843, 2361 of 7456 triangles, |
| 14440 | | 31865, 5101 of 8924 triangles, 31779, 6356 of 9084 triangles, 31738, 5023 of |
| 14441 | | 9760 triangles, 31587, 5689 of 8816 triangles, 31855, 5432 of 8876 triangles, |
| 14442 | | 31741, 5792 of 8972 triangles, 31708, 4173 of 8704 triangles, 31696, 5317 of |
| 14443 | | 8284 triangles, 31631, 4074 of 9032 triangles, 31628, 5031 of 7848 triangles, |
| 14444 | | 31308, 1501 of 7300 triangles, 31720, 4394 of 7736 triangles, 31699, 5754 of |
| 14445 | | 7664 triangles, 31718, 3292 of 7676 triangles, 31723, 3342 of 7700 triangles, |
| 14446 | | 31866, 4720 of 7680 triangles, 31848, 4086 of 7816 triangles, 31645, 3792 of |
| 14447 | | 7496 triangles, 31643, 3950 of 7200 triangles, 31862, 4364 of 6784 triangles, |
| 14448 | | 31584, 4153 of 6740 triangles, 30847, 5304 of 6668 triangles, 31728, 4636 of |
| 14449 | | 7048 triangles, 31846, 4388 of 7240 triangles, 31710, 4258 of 6136 triangles, |
| 14450 | | 31630, 3402 of 6072 triangles, 31627, 2921 of 5568 triangles, 31821, 3963 of |
| 14451 | | 6220 triangles, 31780, 3080 of 6032 triangles, 31849, 2208 of 5944 triangles, |
| 14452 | | 31684, 3293 of 5500 triangles, 31649, 3028 of 6004 triangles, 31121, 3008 of |
| 14453 | | 5176 triangles, 30850, 2505 of 5224 triangles, 31207, 3581 of 4728 triangles, |
| 14454 | | 30939, 3720 of 5092 triangles, 31614, 3094 of 5448 triangles, 30948, 3503 of |
| 14455 | | 5120 triangles, 31582, 2748 of 5156 triangles, 31639, 2544 of 4796 triangles, |
| 14456 | | 31732, 3367 of 4856 triangles, 31730, 2908 of 4520 triangles, 31770, 2124 of |
| 14457 | | 3700 triangles, 31844, 3162 of 3856 triangles, 31856, 1664 of 3760 triangles, |
| 14458 | | 31784, 2600 of 3976 triangles, 31622, 841 of 3336 triangles, 30917, 660 of |
| 14459 | | 2900 triangles, 31774, 2220 of 3028 triangles, 31424, 1624 of 2188 triangles, |
| 14460 | | 31266, 308 of 2052 triangles, 30868, 1098 of 1280 triangles, 31210, 352 of |
| 14461 | | 1100 triangles, 31020, 48 of 964 triangles, 30839, 851 of 888 triangles, |
| 14462 | | 31011, 28692, 310 of 380 triangles, 6 3Xunits.mrc |
| 14463 | | |
| 14464 | | > select clear |
| 14465 | | |
| 14466 | | > select #23.71 |
| 14467 | | |
| 14468 | | 1 model selected |
| 14469 | | |
| 14470 | | > select add #23.310 |
| 14471 | | |
| 14472 | | 2 models selected |
| 14473 | | |
| 14474 | | > select add #23.263 |
| 14475 | | |
| 14476 | | 3 models selected |
| 14477 | | |
| 14478 | | > select add #23.53 |
| 14479 | | |
| 14480 | | 4 models selected |
| 14481 | | |
| 14482 | | > hide #!6 models |
| 14483 | | |
| 14484 | | Drag select of 31815, 3679 of 17432 triangles, 31851, 4783 of 16580 triangles, |
| 14485 | | 31775, 1474 of 13516 triangles, 31579, 1842 of 11588 triangles, 31748, 2215 of |
| 14486 | | 11728 triangles, 31694, 1423 of 9188 triangles, 31864, 1344 of 10620 |
| 14487 | | triangles, 31659, 141 of 10672 triangles, 30901, 3021 of 8316 triangles, |
| 14488 | | 30837, 1419 of 9164 triangles, 31859, 1937 of 9508 triangles, 31738, 2701 of |
| 14489 | | 9760 triangles, 31631, 3152 of 9032 triangles, 31699, 2345 of 7664 triangles, |
| 14490 | | 31723, 570 of 7700 triangles, 31848, 1248 of 7816 triangles, 31645, 2741 of |
| 14491 | | 7496 triangles, 31862, 81 of 6784 triangles, 31584, 958 of 6740 triangles, |
| 14492 | | 31728, 140 of 7048 triangles, 31630, 622 of 6072 triangles, 31780, 107 of 6032 |
| 14493 | | triangles, 31849, 125 of 5944 triangles, 31649, 1114 of 6004 triangles, 31207, |
| 14494 | | 765 of 4728 triangles, 30939, 911 of 5092 triangles, 31614, 1806 of 5448 |
| 14495 | | triangles, 31770, 465 of 3700 triangles, 31856, 741 of 3760 triangles, 31784, |
| 14496 | | 1398 of 3976 triangles, 31774, 916 of 3028 triangles, 31210, 318 of 1100 |
| 14497 | | triangles, 30839, 71 of 888 triangles |
| 14498 | | Drag select of 31808, 81 of 51436 triangles, 31801, 553 of 25260 triangles, |
| 14499 | | 31826, 1444 of 19392 triangles, 31828, 2305 of 17232 triangles, 31842, 2279 of |
| 14500 | | 16596 triangles, 31836, 25 of 15488 triangles, 31790, 795 of 13600 triangles, |
| 14501 | | 31673, 70 of 12616 triangles, 31776, 1479 of 11900 triangles, 31715, 768 of |
| 14502 | | 11552 triangles, 31841, 1142 of 11336 triangles, 31691, 185 of 10484 |
| 14503 | | triangles, 31802, 34 of 9644 triangles, 31779, 801 of 9084 triangles, 31587, |
| 14504 | | 209 of 8816 triangles, 31855, 718 of 8876 triangles, 31741, 1429 of 8972 |
| 14505 | | triangles, 31708, 1140 of 8704 triangles, 31696, 1323 of 8284 triangles, |
| 14506 | | 31720, 107 of 7736 triangles, 31718, 535 of 7676 triangles, 31643, 267 of 7200 |
| 14507 | | triangles, 30847, 380 of 6668 triangles, 31846, 884 of 7240 triangles, 31710, |
| 14508 | | 109 of 6136 triangles, 31627, 13 of 5568 triangles, 31821, 529 of 6220 |
| 14509 | | triangles, 31684, 328 of 5500 triangles, 31121, 731 of 5176 triangles, 30850, |
| 14510 | | 349 of 5224 triangles, 31732, 225 of 4856 triangles, 31730, 640 of 4520 |
| 14511 | | triangles, 31844, 847 of 3856 triangles, 31266, 59 of 2052 triangles, 31011, |
| 14512 | | 54 of 620 triangles |
| 14513 | | Drag select of 31845, 7035 of 26232 triangles, 31805, 31816, 31757, 20325 of |
| 14514 | | 21016 triangles, 31835, 4532 of 20008 triangles, 31665, 68 of 18676 triangles, |
| 14515 | | 31711, 1002 of 17600 triangles, 31789, 6633 of 16980 triangles, 31833, 7775 of |
| 14516 | | 17928 triangles, 31753, 14962 of 14964 triangles, 31736, 3588 of 17348 |
| 14517 | | triangles, 31745, 10624 of 13572 triangles, 31661, 31817, 31803, 2607 of 14200 |
| 14518 | | triangles, 31806, 31618, 6795 of 10620 triangles, 31717, 30874, 3861 of 10376 |
| 14519 | | triangles, 31539, 31832, 3444 of 9116 triangles, 31601, 9680 of 9764 |
| 14520 | | triangles, 30843, 523 of 7456 triangles, 31865, 3029 of 8924 triangles, 31628, |
| 14521 | | 4586 of 7848 triangles, 31308, 142 of 7300 triangles, 31866, 4612 of 7680 |
| 14522 | | triangles, 30948, 3160 of 5120 triangles, 31639, 2358 of 4796 triangles, |
| 14523 | | 31622, 192 of 3336 triangles, 31424, 1566 of 2188 triangles, 31020, 44 of 964 |
| 14524 | | triangles, 28692, 206 of 380 triangles |
| 14525 | | |
| 14526 | | > select add #23.101 |
| 14527 | | |
| 14528 | | 106 models selected |
| 14529 | | |
| 14530 | | > select add #23.74 |
| 14531 | | |
| 14532 | | 107 models selected |
| 14533 | | |
| 14534 | | > select add #23.201 |
| 14535 | | |
| 14536 | | 108 models selected |
| 14537 | | |
| 14538 | | > select add #23.96 |
| 14539 | | |
| 14540 | | 109 models selected |
| 14541 | | |
| 14542 | | > select add #23.88 |
| 14543 | | |
| 14544 | | 110 models selected |
| 14545 | | |
| 14546 | | > select add #23.115 |
| 14547 | | |
| 14548 | | 111 models selected |
| 14549 | | |
| 14550 | | > select add #23.57 |
| 14551 | | |
| 14552 | | 112 models selected |
| 14553 | | |
| 14554 | | > select add #23.58 |
| 14555 | | |
| 14556 | | 113 models selected |
| 14557 | | |
| 14558 | | > select add #23.77 |
| 14559 | | |
| 14560 | | 114 models selected |
| 14561 | | |
| 14562 | | > select add #23.130 |
| 14563 | | |
| 14564 | | 115 models selected |
| 14565 | | |
| 14566 | | > select add #23.138 |
| 14567 | | |
| 14568 | | 116 models selected |
| 14569 | | |
| 14570 | | > select subtract #23.138 |
| 14571 | | |
| 14572 | | 115 models selected |
| 14573 | | |
| 14574 | | > select add #23.138 |
| 14575 | | |
| 14576 | | 116 models selected |
| 14577 | | |
| 14578 | | > select add #23.122 |
| 14579 | | |
| 14580 | | 117 models selected |
| 14581 | | |
| 14582 | | > select add #23.205 |
| 14583 | | |
| 14584 | | 118 models selected |
| 14585 | | |
| 14586 | | > select add #23.64 |
| 14587 | | |
| 14588 | | 119 models selected |
| 14589 | | Drag select of 30917, 939 of 2900 triangles |
| 14590 | | |
| 14591 | | > select add #23.170 |
| 14592 | | |
| 14593 | | 121 models selected |
| 14594 | | |
| 14595 | | > select add #23.145 |
| 14596 | | |
| 14597 | | 122 models selected |
| 14598 | | |
| 14599 | | > select add #23.105 |
| 14600 | | |
| 14601 | | 123 models selected |
| 14602 | | |
| 14603 | | > select add #23.79 |
| 14604 | | |
| 14605 | | 124 models selected |
| 14606 | | |
| 14607 | | > select add #23.183 |
| 14608 | | |
| 14609 | | 125 models selected |
| 14610 | | |
| 14611 | | > select add #23.118 |
| 14612 | | |
| 14613 | | 126 models selected |
| 14614 | | |
| 14615 | | > select subtract #23.118 |
| 14616 | | |
| 14617 | | 125 models selected |
| 14618 | | |
| 14619 | | > select add #23.139 |
| 14620 | | |
| 14621 | | 126 models selected |
| 14622 | | |
| 14623 | | > select add #23.118 |
| 14624 | | |
| 14625 | | 127 models selected |
| 14626 | | |
| 14627 | | > select add #23.200 |
| 14628 | | |
| 14629 | | 128 models selected |
| 14630 | | |
| 14631 | | > select add #23.104 |
| 14632 | | |
| 14633 | | 129 models selected |
| 14634 | | |
| 14635 | | > select subtract #23.104 |
| 14636 | | |
| 14637 | | 128 models selected |
| 14638 | | |
| 14639 | | > select add #23.110 |
| 14640 | | |
| 14641 | | 129 models selected |
| 14642 | | |
| 14643 | | > select add #23.269 |
| 14644 | | |
| 14645 | | 130 models selected |
| 14646 | | |
| 14647 | | > select add #23.104 |
| 14648 | | |
| 14649 | | 131 models selected |
| 14650 | | |
| 14651 | | > select add #23.192 |
| 14652 | | |
| 14653 | | 132 models selected |
| 14654 | | |
| 14655 | | > select add #23.135 |
| 14656 | | |
| 14657 | | 133 models selected |
| 14658 | | |
| 14659 | | > select add #23.127 |
| 14660 | | |
| 14661 | | 134 models selected |
| 14662 | | |
| 14663 | | > select add #23.169 |
| 14664 | | |
| 14665 | | 135 models selected |
| 14666 | | |
| 14667 | | > select add #23.153 |
| 14668 | | |
| 14669 | | 136 models selected |
| 14670 | | |
| 14671 | | > select add #23.266 |
| 14672 | | |
| 14673 | | 137 models selected |
| 14674 | | |
| 14675 | | > select add #23.95 |
| 14676 | | |
| 14677 | | 138 models selected |
| 14678 | | |
| 14679 | | > select add #23.124 |
| 14680 | | |
| 14681 | | 139 models selected |
| 14682 | | |
| 14683 | | > select add #23.176 |
| 14684 | | |
| 14685 | | 140 models selected |
| 14686 | | |
| 14687 | | > select add #23.91 |
| 14688 | | |
| 14689 | | 141 models selected |
| 14690 | | |
| 14691 | | > select add #23.83 |
| 14692 | | |
| 14693 | | 142 models selected |
| 14694 | | |
| 14695 | | > select add #23.154 |
| 14696 | | |
| 14697 | | 143 models selected |
| 14698 | | |
| 14699 | | > select add #23.166 |
| 14700 | | |
| 14701 | | 144 models selected |
| 14702 | | |
| 14703 | | > select add #23.186 |
| 14704 | | |
| 14705 | | 145 models selected |
| 14706 | | |
| 14707 | | > select add #23.222 |
| 14708 | | |
| 14709 | | 146 models selected |
| 14710 | | |
| 14711 | | > select add #23.188 |
| 14712 | | |
| 14713 | | 147 models selected |
| 14714 | | |
| 14715 | | > select add #23.117 |
| 14716 | | |
| 14717 | | 148 models selected |
| 14718 | | |
| 14719 | | > select add #23.34 |
| 14720 | | |
| 14721 | | 149 models selected |
| 14722 | | |
| 14723 | | > select add #23.66 |
| 14724 | | |
| 14725 | | 150 models selected |
| 14726 | | |
| 14727 | | > select add #23.235 |
| 14728 | | |
| 14729 | | 151 models selected |
| 14730 | | |
| 14731 | | > select add #23.81 |
| 14732 | | |
| 14733 | | 152 models selected |
| 14734 | | |
| 14735 | | > select add #23.234 |
| 14736 | | |
| 14737 | | 153 models selected |
| 14738 | | |
| 14739 | | > select add #23.46 |
| 14740 | | |
| 14741 | | 154 models selected |
| 14742 | | |
| 14743 | | > select add #23.76 |
| 14744 | | |
| 14745 | | 155 models selected |
| 14746 | | |
| 14747 | | > select add #23.99 |
| 14748 | | |
| 14749 | | 156 models selected |
| 14750 | | |
| 14751 | | > select add #23.82 |
| 14752 | | |
| 14753 | | 157 models selected |
| 14754 | | |
| 14755 | | > select subtract #23.117 |
| 14756 | | |
| 14757 | | 156 models selected |
| 14758 | | |
| 14759 | | > select add #23.132 |
| 14760 | | |
| 14761 | | 157 models selected |
| 14762 | | |
| 14763 | | > select add #23.117 |
| 14764 | | |
| 14765 | | 158 models selected |
| 14766 | | Drag select of 31813, 7756 of 36304 triangles, 31703, 13 of 14596 triangles, |
| 14767 | | 31768, 31793, 1968 of 12160 triangles, 31704, 6782 of 10356 triangles, 31662, |
| 14768 | | 749 of 8176 triangles, 31829, 4006 of 7124 triangles |
| 14769 | | Drag select of 1769, 31771, 31840, 7329 of 16068 triangles, 31818, 6770 of |
| 14770 | | 16040 triangles, 31762, 31800, 2967 of 11620 triangles, 31838, 3746 of 10984 |
| 14771 | | triangles, 31794, 5854 of 10336 triangles, 31706, 5479 of 9924 triangles, |
| 14772 | | 31823, 5043 of 9616 triangles, 31132, 31824, 4295 of 7836 triangles, 31687, |
| 14773 | | 3465 of 8048 triangles, 30861, 3431 of 7340 triangles, 31820, 3503 of 7556 |
| 14774 | | triangles, 30909, 2558 of 5784 triangles, 30954, 2789 of 5640 triangles, |
| 14775 | | 31577, 2918 of 4476 triangles, 31097, 31573, 1840 of 4408 triangles, 30869, |
| 14776 | | 1248 of 2960 triangles, 31139, 558 of 2520 triangles, 31152, 523 of 2232 |
| 14777 | | triangles |
| 14778 | | |
| 14779 | | > select add #23.246 |
| 14780 | | |
| 14781 | | 189 models selected |
| 14782 | | |
| 14783 | | > select add #23.298 |
| 14784 | | |
| 14785 | | 190 models selected |
| 14786 | | |
| 14787 | | > select add #23.219 |
| 14788 | | |
| 14789 | | 191 models selected |
| 14790 | | |
| 14791 | | > select add #23.216 |
| 14792 | | |
| 14793 | | 192 models selected |
| 14794 | | |
| 14795 | | > select add #23.252 |
| 14796 | | |
| 14797 | | 193 models selected |
| 14798 | | |
| 14799 | | > select add #23.126 |
| 14800 | | |
| 14801 | | 194 models selected |
| 14802 | | |
| 14803 | | > select add #23.202 |
| 14804 | | |
| 14805 | | 195 models selected |
| 14806 | | |
| 14807 | | > select add #23.241 |
| 14808 | | |
| 14809 | | 196 models selected |
| 14810 | | |
| 14811 | | > select add #23.111 |
| 14812 | | |
| 14813 | | 197 models selected |
| 14814 | | |
| 14815 | | > select add #23.155 |
| 14816 | | |
| 14817 | | 198 models selected |
| 14818 | | |
| 14819 | | > select add #23.173 |
| 14820 | | |
| 14821 | | 199 models selected |
| 14822 | | |
| 14823 | | > select add #23.260 |
| 14824 | | |
| 14825 | | 200 models selected |
| 14826 | | |
| 14827 | | > select add #23.302 |
| 14828 | | |
| 14829 | | 201 models selected |
| 14830 | | |
| 14831 | | > select add #23.167 |
| 14832 | | |
| 14833 | | 202 models selected |
| 14834 | | |
| 14835 | | > select add #23.10 |
| 14836 | | |
| 14837 | | 203 models selected |
| 14838 | | |
| 14839 | | > select subtract #23.10 |
| 14840 | | |
| 14841 | | 202 models selected |
| 14842 | | |
| 14843 | | > select add #23.295 |
| 14844 | | |
| 14845 | | 203 models selected |
| 14846 | | |
| 14847 | | > select add #23.276 |
| 14848 | | |
| 14849 | | 204 models selected |
| 14850 | | |
| 14851 | | > select add #23.210 |
| 14852 | | |
| 14853 | | 205 models selected |
| 14854 | | |
| 14855 | | > select add #23.265 |
| 14856 | | |
| 14857 | | 206 models selected |
| 14858 | | |
| 14859 | | > select add #23.134 |
| 14860 | | |
| 14861 | | 207 models selected |
| 14862 | | |
| 14863 | | > select add #23.119 |
| 14864 | | |
| 14865 | | 208 models selected |
| 14866 | | |
| 14867 | | > select add #23.75 |
| 14868 | | |
| 14869 | | 209 models selected |
| 14870 | | |
| 14871 | | > select add #23.211 |
| 14872 | | |
| 14873 | | 210 models selected |
| 14874 | | |
| 14875 | | > select add #23.113 |
| 14876 | | |
| 14877 | | 211 models selected |
| 14878 | | |
| 14879 | | > select add #23.177 |
| 14880 | | |
| 14881 | | 212 models selected |
| 14882 | | |
| 14883 | | > select add #23.128 |
| 14884 | | |
| 14885 | | 213 models selected |
| 14886 | | |
| 14887 | | > select add #23.226 |
| 14888 | | |
| 14889 | | 214 models selected |
| 14890 | | |
| 14891 | | > select add #23.259 |
| 14892 | | |
| 14893 | | 215 models selected |
| 14894 | | |
| 14895 | | > select add #23.236 |
| 14896 | | |
| 14897 | | 216 models selected |
| 14898 | | |
| 14899 | | > select add #23.247 |
| 14900 | | |
| 14901 | | 217 models selected |
| 14902 | | |
| 14903 | | > select add #23.294 |
| 14904 | | |
| 14905 | | 218 models selected |
| 14906 | | |
| 14907 | | > select add #23.315 |
| 14908 | | |
| 14909 | | 219 models selected |
| 14910 | | |
| 14911 | | > select add #23.291 |
| 14912 | | |
| 14913 | | 220 models selected |
| 14914 | | |
| 14915 | | > select add #23.233 |
| 14916 | | |
| 14917 | | 221 models selected |
| 14918 | | |
| 14919 | | > select add #23.254 |
| 14920 | | |
| 14921 | | 222 models selected |
| 14922 | | |
| 14923 | | > select add #23.151 |
| 14924 | | |
| 14925 | | 223 models selected |
| 14926 | | |
| 14927 | | > select add #23.237 |
| 14928 | | |
| 14929 | | 224 models selected |
| 14930 | | |
| 14931 | | > select add #23.171 |
| 14932 | | |
| 14933 | | 225 models selected |
| 14934 | | |
| 14935 | | > select add #23.225 |
| 14936 | | |
| 14937 | | 226 models selected |
| 14938 | | |
| 14939 | | > select subtract #23.225 |
| 14940 | | |
| 14941 | | 225 models selected |
| 14942 | | |
| 14943 | | > select add #23.8 |
| 14944 | | |
| 14945 | | 226 models selected |
| 14946 | | |
| 14947 | | > select add #23.17 |
| 14948 | | |
| 14949 | | 227 models selected |
| 14950 | | |
| 14951 | | > select subtract #23.8 |
| 14952 | | |
| 14953 | | 226 models selected |
| 14954 | | |
| 14955 | | > select subtract #23.17 |
| 14956 | | |
| 14957 | | 225 models selected |
| 14958 | | |
| 14959 | | > select add #23.225 |
| 14960 | | |
| 14961 | | 226 models selected |
| 14962 | | |
| 14963 | | > select add #23.42 |
| 14964 | | |
| 14965 | | 227 models selected |
| 14966 | | |
| 14967 | | > select subtract #23.42 |
| 14968 | | |
| 14969 | | 226 models selected |
| 14970 | | Drag select of 31607, 1565 of 6884 triangles, 31680, 1071 of 5808 triangles |
| 14971 | | |
| 14972 | | > select add #23.273 |
| 14973 | | |
| 14974 | | 229 models selected |
| 14975 | | |
| 14976 | | > select add #23.284 |
| 14977 | | |
| 14978 | | 230 models selected |
| 14979 | | |
| 14980 | | > select add #23.288 |
| 14981 | | |
| 14982 | | 231 models selected |
| 14983 | | |
| 14984 | | > select add #23.308 |
| 14985 | | |
| 14986 | | 232 models selected |
| 14987 | | |
| 14988 | | > select add #23.313 |
| 14989 | | |
| 14990 | | 233 models selected |
| 14991 | | |
| 14992 | | > select add #23.244 |
| 14993 | | |
| 14994 | | 234 models selected |
| 14995 | | |
| 14996 | | > select add #23.108 |
| 14997 | | |
| 14998 | | 235 models selected |
| 14999 | | |
| 15000 | | > select add #23.114 |
| 15001 | | |
| 15002 | | 236 models selected |
| 15003 | | |
| 15004 | | > select add #23.274 |
| 15005 | | |
| 15006 | | 237 models selected |
| 15007 | | Drag select of 30947, 31289, 1390 of 3768 triangles, 31321, 2312 of 2832 |
| 15008 | | triangles, 31328, 27021, 148 of 352 triangles |
| 15009 | | Drag select of 31867, 2101 of 19448 triangles, 31588, 1801 of 9000 triangles, |
| 15010 | | 31273, 3306 of 9504 triangles, 31481, 1474 of 8272 triangles, 31275, 1366 of |
| 15011 | | 4792 triangles, 31482, 3114 of 7212 triangles, 30973, 2628 of 6800 triangles, |
| 15012 | | 30977, 4416 of 6628 triangles, 31571, 3425 of 7012 triangles, 31000, 3303 of |
| 15013 | | 6396 triangles, 31791, 1098 of 5672 triangles, 31619, 6 of 4736 triangles |
| 15014 | | Drag select of 31295, 4490 of 8232 triangles, 31758, 4678 of 6880 triangles, |
| 15015 | | 31381, 657 of 4136 triangles, 31620, 1376 of 4012 triangles |
| 15016 | | |
| 15017 | | > select add #23.261 |
| 15018 | | |
| 15019 | | 259 models selected |
| 15020 | | |
| 15021 | | > select add #23.214 |
| 15022 | | |
| 15023 | | 260 models selected |
| 15024 | | |
| 15025 | | > select add #23.290 |
| 15026 | | |
| 15027 | | 261 models selected |
| 15028 | | |
| 15029 | | > select add #23.27 |
| 15030 | | |
| 15031 | | 262 models selected |
| 15032 | | |
| 15033 | | > select subtract #23.27 |
| 15034 | | |
| 15035 | | 261 models selected |
| 15036 | | |
| 15037 | | > select add #23.301 |
| 15038 | | |
| 15039 | | 262 models selected |
| 15040 | | |
| 15041 | | > select add #23.272 |
| 15042 | | |
| 15043 | | 263 models selected |
| 15044 | | |
| 15045 | | > select add #23.204 |
| 15046 | | |
| 15047 | | 264 models selected |
| 15048 | | |
| 15049 | | > select add #23.293 |
| 15050 | | |
| 15051 | | 265 models selected |
| 15052 | | |
| 15053 | | > select add #23.7 |
| 15054 | | |
| 15055 | | 266 models selected |
| 15056 | | |
| 15057 | | > select subtract #23.7 |
| 15058 | | |
| 15059 | | 265 models selected |
| 15060 | | |
| 15061 | | The cached device pixel ratio value was stale on window expose. Please file a |
| 15062 | | QTBUG which explains how to reproduce. |
| 15063 | | |
| 15064 | | Opened 3Xunits_imasked as #24, grid size 240,240,240, pixel 2.1, shown at step |
| 15065 | | 1, values float32 |
| 15066 | | Segmenting 3Xunits_imasked, density threshold 0.037925 |
| 15067 | | Showing 53 region surfaces |
| 15068 | | 1349 watershed regions, grouped to 53 regions |
| 15069 | | Showing 3Xunits_imasked.seg - 53 regions, 53 surfaces |
| 15070 | | |
| 15071 | | > select add #23.40 |
| 15072 | | |
| 15073 | | 1 model selected |
| 15074 | | |
| 15075 | | > select add #23.31 |
| 15076 | | |
| 15077 | | 2 models selected |
| 15078 | | |
| 15079 | | > select add #23.33 |
| 15080 | | |
| 15081 | | 3 models selected |
| 15082 | | |
| 15083 | | > select add #23.28 |
| 15084 | | |
| 15085 | | 4 models selected |
| 15086 | | |
| 15087 | | > select add #23.36 |
| 15088 | | |
| 15089 | | 5 models selected |
| 15090 | | |
| 15091 | | > select add #23.23 |
| 15092 | | |
| 15093 | | 6 models selected |
| 15094 | | |
| 15095 | | > select add #23 |
| 15096 | | |
| 15097 | | 54 models selected |
| 15098 | | |
| 15099 | | > select subtract #23 |
| 15100 | | |
| 15101 | | Nothing selected |
| 15102 | | |
| 15103 | | > hide #!23 models |
| 15104 | | |
| 15105 | | > show #!23 models |
| 15106 | | |
| 15107 | | > hide #!24 models |
| 15108 | | |
| 15109 | | > select add #23.9 |
| 15110 | | |
| 15111 | | 1 model selected |
| 15112 | | |
| 15113 | | > select add #23.11 |
| 15114 | | |
| 15115 | | 2 models selected |
| 15116 | | |
| 15117 | | > select add #23.12 |
| 15118 | | |
| 15119 | | 3 models selected |
| 15120 | | |
| 15121 | | > show #!15 models |
| 15122 | | |
| 15123 | | > select add #23.18 |
| 15124 | | |
| 15125 | | 4 models selected |
| 15126 | | |
| 15127 | | > select add #23.16 |
| 15128 | | |
| 15129 | | 5 models selected |
| 15130 | | |
| 15131 | | > select add #23.17 |
| 15132 | | |
| 15133 | | 6 models selected |
| 15134 | | |
| 15135 | | > select subtract #23.16 |
| 15136 | | |
| 15137 | | 5 models selected |
| 15138 | | |
| 15139 | | > select subtract #23.17 |
| 15140 | | |
| 15141 | | 4 models selected |
| 15142 | | |
| 15143 | | > select add #23.17 |
| 15144 | | |
| 15145 | | 5 models selected |
| 15146 | | |
| 15147 | | > select add #23.32 |
| 15148 | | |
| 15149 | | 6 models selected |
| 15150 | | |
| 15151 | | > select add #23.41 |
| 15152 | | |
| 15153 | | 7 models selected |
| 15154 | | |
| 15155 | | > select add #23.8 |
| 15156 | | |
| 15157 | | 8 models selected |
| 15158 | | |
| 15159 | | > select subtract #23.8 |
| 15160 | | |
| 15161 | | 7 models selected |
| 15162 | | |
| 15163 | | > select add #23.15 |
| 15164 | | |
| 15165 | | 8 models selected |
| 15166 | | |
| 15167 | | > select add #23.19 |
| 15168 | | |
| 15169 | | 9 models selected |
| 15170 | | Grouped 9 regions |
| 15171 | | |
| 15172 | | > select clear |
| 15173 | | |
| 15174 | | > select #23.9 |
| 15175 | | |
| 15176 | | 1 model selected |
| 15177 | | |
| 15178 | | > select clear |
| 15179 | | |
| 15180 | | > select #23.13 |
| 15181 | | |
| 15182 | | 1 model selected |
| 15183 | | |
| 15184 | | > select add #23.14 |
| 15185 | | |
| 15186 | | 2 models selected |
| 15187 | | |
| 15188 | | > select add #23.16 |
| 15189 | | |
| 15190 | | 3 models selected |
| 15191 | | Ungrouped to 8 regions |
| 15192 | | Ungrouped to 15 regions |
| 15193 | | Ungrouped to 6 regions |
| 15194 | | Ungrouped to 0 regions |
| 15195 | | |
| 15196 | | > select #23.32 |
| 15197 | | |
| 15198 | | 1 model selected |
| 15199 | | |
| 15200 | | > select add #23.41 |
| 15201 | | |
| 15202 | | 2 models selected |
| 15203 | | |
| 15204 | | > select add #23.11 |
| 15205 | | |
| 15206 | | 3 models selected |
| 15207 | | |
| 15208 | | > select add #23.54 |
| 15209 | | |
| 15210 | | 4 models selected |
| 15211 | | |
| 15212 | | > select add #23.19 |
| 15213 | | |
| 15214 | | 5 models selected |
| 15215 | | |
| 15216 | | > select add #23.18 |
| 15217 | | |
| 15218 | | 6 models selected |
| 15219 | | |
| 15220 | | > select add #23.20 |
| 15221 | | |
| 15222 | | 7 models selected |
| 15223 | | |
| 15224 | | > select subtract #23.20 |
| 15225 | | |
| 15226 | | 6 models selected |
| 15227 | | Grouped 6 regions |
| 15228 | | |
| 15229 | | > select add #23.59 |
| 15230 | | |
| 15231 | | 2 models selected |
| 15232 | | |
| 15233 | | > select add #23.58 |
| 15234 | | |
| 15235 | | 3 models selected |
| 15236 | | |
| 15237 | | > select add #23.63 |
| 15238 | | |
| 15239 | | 4 models selected |
| 15240 | | |
| 15241 | | > select add #23.62 |
| 15242 | | |
| 15243 | | 5 models selected |
| 15244 | | Grouped 5 regions |
| 15245 | | |
| 15246 | | > select #23.17 |
| 15247 | | |
| 15248 | | 1 model selected |
| 15249 | | |
| 15250 | | > select add #23.15 |
| 15251 | | |
| 15252 | | 2 models selected |
| 15253 | | |
| 15254 | | > select add #23.13 |
| 15255 | | |
| 15256 | | 3 models selected |
| 15257 | | |
| 15258 | | > select add #23.57 |
| 15259 | | |
| 15260 | | 4 models selected |
| 15261 | | |
| 15262 | | > select add #23.56 |
| 15263 | | |
| 15264 | | 5 models selected |
| 15265 | | Grouped 5 regions |
| 15266 | | |
| 15267 | | > select add #23.11 |
| 15268 | | |
| 15269 | | 2 models selected |
| 15270 | | Grouped 2 regions |
| 15271 | | Showing 48 region surfaces |
| 15272 | | |
| 15273 | | > select add #23.9 |
| 15274 | | |
| 15275 | | 2 models selected |
| 15276 | | Grouped 2 regions |
| 15277 | | |
| 15278 | | > select add #23.23 |
| 15279 | | |
| 15280 | | 2 models selected |
| 15281 | | |
| 15282 | | > select add #23.36 |
| 15283 | | |
| 15284 | | 3 models selected |
| 15285 | | |
| 15286 | | > select add #23.28 |
| 15287 | | |
| 15288 | | 4 models selected |
| 15289 | | |
| 15290 | | > select add #23.40 |
| 15291 | | |
| 15292 | | 5 models selected |
| 15293 | | |
| 15294 | | > select add #23.33 |
| 15295 | | |
| 15296 | | 6 models selected |
| 15297 | | |
| 15298 | | > select add #23.31 |
| 15299 | | |
| 15300 | | 7 models selected |
| 15301 | | Grouped 7 regions |
| 15302 | | |
| 15303 | | > select add #23.20 |
| 15304 | | |
| 15305 | | 2 models selected |
| 15306 | | |
| 15307 | | > select clear |
| 15308 | | |
| 15309 | | > select #23.20 |
| 15310 | | |
| 15311 | | 1 model selected |
| 15312 | | Ungrouped to 2 regions |
| 15313 | | Ungrouped to 5 regions |
| 15314 | | Ungrouped to 0 regions |
| 15315 | | |
| 15316 | | > select #23.9 |
| 15317 | | |
| 15318 | | 1 model selected |
| 15319 | | |
| 15320 | | > select add #23.15 |
| 15321 | | |
| 15322 | | 2 models selected |
| 15323 | | |
| 15324 | | > select add #23.18 |
| 15325 | | |
| 15326 | | 3 models selected |
| 15327 | | |
| 15328 | | > select add #23.19 |
| 15329 | | |
| 15330 | | 4 models selected |
| 15331 | | |
| 15332 | | > select add #23.20 |
| 15333 | | |
| 15334 | | 5 models selected |
| 15335 | | |
| 15336 | | > select add #23.29 |
| 15337 | | |
| 15338 | | 6 models selected |
| 15339 | | Grouped 6 regions |
| 15340 | | |
| 15341 | | > select #23.1 |
| 15342 | | |
| 15343 | | 1 model selected |
| 15344 | | Grouped 1 regions |
| 15345 | | Showing 40 region surfaces |
| 15346 | | |
| 15347 | | > select clear |
| 15348 | | |
| 15349 | | > select #23.9 |
| 15350 | | |
| 15351 | | 1 model selected |
| 15352 | | |
| 15353 | | > select add #23.22 |
| 15354 | | |
| 15355 | | 2 models selected |
| 15356 | | |
| 15357 | | > select add #23.39 |
| 15358 | | |
| 15359 | | 3 models selected |
| 15360 | | |
| 15361 | | > select add #23.38 |
| 15362 | | |
| 15363 | | 4 models selected |
| 15364 | | |
| 15365 | | > select add #23.37 |
| 15366 | | |
| 15367 | | 5 models selected |
| 15368 | | |
| 15369 | | > select add #23.25 |
| 15370 | | |
| 15371 | | 6 models selected |
| 15372 | | |
| 15373 | | > select add #23.43 |
| 15374 | | |
| 15375 | | 7 models selected |
| 15376 | | |
| 15377 | | > select add #23.49 |
| 15378 | | |
| 15379 | | 8 models selected |
| 15380 | | |
| 15381 | | > select add #23.42 |
| 15382 | | |
| 15383 | | 9 models selected |
| 15384 | | |
| 15385 | | > select add #23.34 |
| 15386 | | |
| 15387 | | 10 models selected |
| 15388 | | |
| 15389 | | > select add #23.24 |
| 15390 | | |
| 15391 | | 11 models selected |
| 15392 | | |
| 15393 | | > select add #23.35 |
| 15394 | | |
| 15395 | | 12 models selected |
| 15396 | | Grouped 12 regions |
| 15397 | | |
| 15398 | | > select clear |
| 15399 | | |
| 15400 | | > select #23.9 |
| 15401 | | |
| 15402 | | 1 model selected |
| 15403 | | Opened 3Xunits_imasked_imasked as #25, grid size 240,240,240, pixel 2.1, shown |
| 15404 | | at step 1, values float32 |
| 15405 | | Segmenting 3Xunits_imasked_imasked, density threshold 0.037925 |
| 15406 | | Showing 22 region surfaces |
| 15407 | | 491 watershed regions, grouped to 22 regions |
| 15408 | | Showing 3Xunits_imasked_imasked.seg - 22 regions, 22 surfaces |
| 15409 | | |
| 15410 | | The cached device pixel ratio value was stale on window expose. Please file a |
| 15411 | | QTBUG which explains how to reproduce. |
| 15412 | | |
| 15413 | | > save /Volumes/Backup-95/Chimera-2023/PflB-PflA-project/Start- |
| 15414 | | > from_June2024/July_2024/Final-version_model/Flo_PflA_Local/3xOnly-PflAB.mrc |
| 15415 | | > models #25 |
| 15416 | | |
| 15417 | | > select #23.8 |
| 15418 | | |
| 15419 | | 1 model selected |
| 15420 | | |
| 15421 | | > select add #23.3 |
| 15422 | | |
| 15423 | | 2 models selected |
| 15424 | | |
| 15425 | | > select add #23.5 |
| 15426 | | |
| 15427 | | 3 models selected |
| 15428 | | |
| 15429 | | > select add #23.17 |
| 15430 | | |
| 15431 | | 4 models selected |
| 15432 | | |
| 15433 | | > select clear |
| 15434 | | |
| 15435 | | > select #23.3 |
| 15436 | | |
| 15437 | | 1 model selected |
| 15438 | | Ungrouped to 2 regions |
| 15439 | | |
| 15440 | | > select clear |
| 15441 | | |
| 15442 | | > select #23.24 |
| 15443 | | |
| 15444 | | 1 model selected |
| 15445 | | |
| 15446 | | > select add #23.8 |
| 15447 | | |
| 15448 | | 2 models selected |
| 15449 | | |
| 15450 | | > select add #23.23 |
| 15451 | | |
| 15452 | | 3 models selected |
| 15453 | | |
| 15454 | | > select add #23.5 |
| 15455 | | |
| 15456 | | 4 models selected |
| 15457 | | |
| 15458 | | > select add #23.17 |
| 15459 | | |
| 15460 | | 5 models selected |
| 15461 | | |
| 15462 | | > select add #23.18 |
| 15463 | | |
| 15464 | | 6 models selected |
| 15465 | | |
| 15466 | | > select add #23.14 |
| 15467 | | |
| 15468 | | 7 models selected |
| 15469 | | |
| 15470 | | > select add #23.6 |
| 15471 | | |
| 15472 | | 8 models selected |
| 15473 | | |
| 15474 | | > select add #23.7 |
| 15475 | | |
| 15476 | | 9 models selected |
| 15477 | | |
| 15478 | | > hide #!25 models |
| 15479 | | |
| 15480 | | > select add #23.13 |
| 15481 | | |
| 15482 | | 10 models selected |
| 15483 | | |
| 15484 | | > select add #23.12 |
| 15485 | | |
| 15486 | | 11 models selected |
| 15487 | | |
| 15488 | | > select add #23.15 |
| 15489 | | |
| 15490 | | 12 models selected |
| 15491 | | Grouped 12 regions |
| 15492 | | |
| 15493 | | > select clear |
| 15494 | | |
| 15495 | | > select #23.3 |
| 15496 | | |
| 15497 | | 1 model selected |
| 15498 | | |
| 15499 | | > select clear |
| 15500 | | |
| 15501 | | > select #23.2 |
| 15502 | | |
| 15503 | | 1 model selected |
| 15504 | | |
| 15505 | | > select clear |
| 15506 | | |
| 15507 | | > select #23.2 |
| 15508 | | |
| 15509 | | 1 model selected |
| 15510 | | Ungrouped to 3 regions |
| 15511 | | Ungrouped to 8 regions |
| 15512 | | Ungrouped to 3 regions |
| 15513 | | Ungrouped to 0 regions |
| 15514 | | |
| 15515 | | > select #23.8 |
| 15516 | | |
| 15517 | | 1 model selected |
| 15518 | | |
| 15519 | | > select add #23.2 |
| 15520 | | |
| 15521 | | 2 models selected |
| 15522 | | |
| 15523 | | > select add #23.5 |
| 15524 | | |
| 15525 | | 3 models selected |
| 15526 | | Grouped 3 regions |
| 15527 | | Showing 19 region surfaces |
| 15528 | | |
| 15529 | | > select clear |
| 15530 | | |
| 15531 | | > select #23.2 |
| 15532 | | |
| 15533 | | 1 model selected |
| 15534 | | |
| 15535 | | > select clear |
| 15536 | | |
| 15537 | | > select #23.2 |
| 15538 | | |
| 15539 | | 1 model selected |
| 15540 | | Opened 3xOnly-PflAB_imasked as #26, grid size 240,240,240, pixel 2.1, shown at |
| 15541 | | step 1, values float32 |
| 15542 | | |
| 15543 | | > hide #!23 models |
| 15544 | | |
| 15545 | | > select add #23 |
| 15546 | | |
| 15547 | | 20 models selected |
| 15548 | | |
| 15549 | | > select subtract #23 |
| 15550 | | |
| 15551 | | Nothing selected |
| 15552 | | |
| 15553 | | > hide #!26 models |
| 15554 | | |
| 15555 | | > show #!26 models |
| 15556 | | |
| 15557 | | The cached device pixel ratio value was stale on window expose. Please file a |
| 15558 | | QTBUG which explains how to reproduce. |
| 15559 | | |
| 15560 | | > save /Volumes/Backup-95/Chimera-2023/PflB-PflA-project/Start- |
| 15561 | | > from_June2024/July_2024/Final-version_model/Flo_PflA_Local/3xOnly-PflAB.mrc |
| 15562 | | > models #26 |
| 15563 | | |
| 15564 | | Segmenting 3xOnly-PflAB.mrc, density threshold 0.037925 |
| 15565 | | Showing 22 region surfaces |
| 15566 | | 488 watershed regions, grouped to 22 regions |
| 15567 | | Showing 3xOnly-PflAB.seg - 22 regions, 22 surfaces |
| 15568 | | |
| 15569 | | > select #23.8 |
| 15570 | | |
| 15571 | | 1 model selected |
| 15572 | | |
| 15573 | | > select add #23.2 |
| 15574 | | |
| 15575 | | 2 models selected |
| 15576 | | |
| 15577 | | > select add #23.4 |
| 15578 | | |
| 15579 | | 3 models selected |
| 15580 | | |
| 15581 | | > select add #23.17 |
| 15582 | | |
| 15583 | | 4 models selected |
| 15584 | | |
| 15585 | | > select add #23.18 |
| 15586 | | |
| 15587 | | 5 models selected |
| 15588 | | |
| 15589 | | > select add #23.14 |
| 15590 | | |
| 15591 | | 6 models selected |
| 15592 | | |
| 15593 | | > select add #23.6 |
| 15594 | | |
| 15595 | | 7 models selected |
| 15596 | | |
| 15597 | | > select add #23.13 |
| 15598 | | |
| 15599 | | 8 models selected |
| 15600 | | |
| 15601 | | > select add #23.7 |
| 15602 | | |
| 15603 | | 9 models selected |
| 15604 | | |
| 15605 | | > select add #23.15 |
| 15606 | | |
| 15607 | | 10 models selected |
| 15608 | | |
| 15609 | | > select add #23.12 |
| 15610 | | |
| 15611 | | 11 models selected |
| 15612 | | |
| 15613 | | > hide #!26 models |
| 15614 | | |
| 15615 | | Grouped 11 regions |
| 15616 | | |
| 15617 | | > select clear |
| 15618 | | |
| 15619 | | > select #23.20 |
| 15620 | | |
| 15621 | | 1 model selected |
| 15622 | | |
| 15623 | | > select add #23.2 |
| 15624 | | |
| 15625 | | 2 models selected |
| 15626 | | Grouped 2 regions |
| 15627 | | |
| 15628 | | > select clear |
| 15629 | | |
| 15630 | | > select add #23.21 |
| 15631 | | |
| 15632 | | 1 model selected |
| 15633 | | |
| 15634 | | > select add #23.22 |
| 15635 | | |
| 15636 | | 2 models selected |
| 15637 | | |
| 15638 | | > select add #15.2/BJ:459@CD |
| 15639 | | |
| 15640 | | 1 atom, 1 residue, 3 models selected |
| 15641 | | |
| 15642 | | > select clear |
| 15643 | | |
| 15644 | | > select #23.21 |
| 15645 | | |
| 15646 | | 1 model selected |
| 15647 | | |
| 15648 | | > select add #23.22 |
| 15649 | | |
| 15650 | | 2 models selected |
| 15651 | | |
| 15652 | | > select add #23.2 |
| 15653 | | |
| 15654 | | 3 models selected |
| 15655 | | |
| 15656 | | > hide #!15 models |
| 15657 | | |
| 15658 | | Grouped 3 regions |
| 15659 | | |
| 15660 | | > select clear |
| 15661 | | |
| 15662 | | > select #23.11 |
| 15663 | | |
| 15664 | | 1 model selected |
| 15665 | | |
| 15666 | | > select add #23.10 |
| 15667 | | |
| 15668 | | 2 models selected |
| 15669 | | Ungrouped to 4 regions |
| 15670 | | Ungrouped to 11 regions |
| 15671 | | Ungrouped to 68 regions |
| 15672 | | Ungrouped to 29 regions |
| 15673 | | |
| 15674 | | > select clear |
| 15675 | | |
| 15676 | | [Repeated 1 time(s)]Drag select of 608, 23 of 125476 triangles, 211, 15 of 56 |
| 15677 | | triangles, 79, 140 of 148 triangles, 77, 104, 72, 58 of 80 triangles, 163, 69 |
| 15678 | | of 132 triangles, 80, 13 of 56 triangles, 78, 105, 81, 26 of 56 triangles, |
| 15679 | | 103, 191, 147, 10 of 56 triangles, 227, 48 of 56 triangles, 128, 179, 138 of |
| 15680 | | 156 triangles, 193, 212, 28 of 56 triangles, 226, 18 of 120 triangles |
| 15681 | | |
| 15682 | | > select add #23.103 |
| 15683 | | |
| 15684 | | 21 models selected |
| 15685 | | |
| 15686 | | > select clear |
| 15687 | | |
| 15688 | | > select add #23.92 |
| 15689 | | |
| 15690 | | 1 model selected |
| 15691 | | |
| 15692 | | > select add #23.93 |
| 15693 | | |
| 15694 | | 2 models selected |
| 15695 | | |
| 15696 | | > select add #23.42 |
| 15697 | | |
| 15698 | | 3 models selected |
| 15699 | | |
| 15700 | | > select add #23.44 |
| 15701 | | |
| 15702 | | 4 models selected |
| 15703 | | |
| 15704 | | > select add #23.88 |
| 15705 | | |
| 15706 | | 5 models selected |
| 15707 | | |
| 15708 | | > select add #23.40 |
| 15709 | | |
| 15710 | | 6 models selected |
| 15711 | | |
| 15712 | | > select add #23.21 |
| 15713 | | |
| 15714 | | 7 models selected |
| 15715 | | |
| 15716 | | > select add #23.91 |
| 15717 | | |
| 15718 | | 8 models selected |
| 15719 | | |
| 15720 | | > select add #23.22 |
| 15721 | | |
| 15722 | | 9 models selected |
| 15723 | | |
| 15724 | | > select add #23.87 |
| 15725 | | |
| 15726 | | 10 models selected |
| 15727 | | |
| 15728 | | > select add #23.100 |
| 15729 | | |
| 15730 | | 11 models selected |
| 15731 | | |
| 15732 | | > select add #23.9 |
| 15733 | | |
| 15734 | | 12 models selected |
| 15735 | | |
| 15736 | | > select subtract #23.9 |
| 15737 | | |
| 15738 | | 11 models selected |
| 15739 | | |
| 15740 | | > select add #23.101 |
| 15741 | | |
| 15742 | | 12 models selected |
| 15743 | | |
| 15744 | | > select add #23.54 |
| 15745 | | |
| 15746 | | 13 models selected |
| 15747 | | |
| 15748 | | > select add #23.62 |
| 15749 | | |
| 15750 | | 14 models selected |
| 15751 | | |
| 15752 | | > select add #23.68 |
| 15753 | | |
| 15754 | | 15 models selected |
| 15755 | | |
| 15756 | | > select add #23.96 |
| 15757 | | |
| 15758 | | 16 models selected |
| 15759 | | |
| 15760 | | > select add #23.107 |
| 15761 | | |
| 15762 | | 17 models selected |
| 15763 | | |
| 15764 | | > select add #23.67 |
| 15765 | | |
| 15766 | | 18 models selected |
| 15767 | | |
| 15768 | | > select add #23.66 |
| 15769 | | |
| 15770 | | 19 models selected |
| 15771 | | |
| 15772 | | > select add #23.108 |
| 15773 | | |
| 15774 | | 20 models selected |
| 15775 | | |
| 15776 | | > select add #23.99 |
| 15777 | | |
| 15778 | | 21 models selected |
| 15779 | | |
| 15780 | | > select add #23.104 |
| 15781 | | |
| 15782 | | 22 models selected |
| 15783 | | |
| 15784 | | > select add #23.97 |
| 15785 | | |
| 15786 | | 23 models selected |
| 15787 | | |
| 15788 | | > select add #23.60 |
| 15789 | | |
| 15790 | | 24 models selected |
| 15791 | | |
| 15792 | | > select add #23.78 |
| 15793 | | |
| 15794 | | 25 models selected |
| 15795 | | |
| 15796 | | > select add #23.49 |
| 15797 | | |
| 15798 | | 26 models selected |
| 15799 | | |
| 15800 | | > select add #23.79 |
| 15801 | | |
| 15802 | | 27 models selected |
| 15803 | | |
| 15804 | | > select add #23.105 |
| 15805 | | |
| 15806 | | 28 models selected |
| 15807 | | |
| 15808 | | > select add #23.109 |
| 15809 | | |
| 15810 | | 29 models selected |
| 15811 | | |
| 15812 | | > select add #23.89 |
| 15813 | | |
| 15814 | | 30 models selected |
| 15815 | | |
| 15816 | | > select add #23.20 |
| 15817 | | |
| 15818 | | 31 models selected |
| 15819 | | |
| 15820 | | > select add #23.58 |
| 15821 | | |
| 15822 | | 32 models selected |
| 15823 | | |
| 15824 | | > select add #23.102 |
| 15825 | | |
| 15826 | | 33 models selected |
| 15827 | | |
| 15828 | | > select add #23.51 |
| 15829 | | |
| 15830 | | 34 models selected |
| 15831 | | |
| 15832 | | > select subtract #23.42 |
| 15833 | | |
| 15834 | | 33 models selected |
| 15835 | | |
| 15836 | | > select add #23.19 |
| 15837 | | |
| 15838 | | 34 models selected |
| 15839 | | Grouped 34 regions |
| 15840 | | |
| 15841 | | > select add #23.2 |
| 15842 | | |
| 15843 | | 2 models selected |
| 15844 | | Grouped 2 regions |
| 15845 | | Drag select of 244, 44 of 56 triangles, 84, 131 of 160 triangles, 195, 108, |
| 15846 | | 243, 17 of 56 triangles, 192, 148, 228, 11 of 56 triangles, 229, 194, 19 of 56 |
| 15847 | | triangles, 129, 164, 22 of 56 triangles, 151, 88 of 112 triangles, 211, 32 of |
| 15848 | | 56 triangles, 106, 130, 196, 150, 133, 162, 41 of 56 triangles, 181, 107, 109 |
| 15849 | | of 172 triangles, 80, 54 of 56 triangles, 103, 147 |
| 15850 | | Grouped 26 regions |
| 15851 | | Drag select of 201, 134, 156, 37 of 56 triangles, 169 |
| 15852 | | |
| 15853 | | > select add #23.1 |
| 15854 | | |
| 15855 | | 6 models selected |
| 15856 | | |
| 15857 | | > select subtract #23.1 |
| 15858 | | |
| 15859 | | 5 models selected |
| 15860 | | |
| 15861 | | > select add #23.59 |
| 15862 | | |
| 15863 | | 6 models selected |
| 15864 | | |
| 15865 | | > select add #23.61 |
| 15866 | | |
| 15867 | | 7 models selected |
| 15868 | | |
| 15869 | | > select add #23.63 |
| 15870 | | |
| 15871 | | 8 models selected |
| 15872 | | |
| 15873 | | > select add #23.64 |
| 15874 | | |
| 15875 | | 9 models selected |
| 15876 | | |
| 15877 | | > select add #23.106 |
| 15878 | | |
| 15879 | | 10 models selected |
| 15880 | | |
| 15881 | | > select add #23.95 |
| 15882 | | |
| 15883 | | 11 models selected |
| 15884 | | |
| 15885 | | > select add #23.32 |
| 15886 | | |
| 15887 | | 12 models selected |
| 15888 | | |
| 15889 | | > select add #23.39 |
| 15890 | | |
| 15891 | | 13 models selected |
| 15892 | | |
| 15893 | | > select add #23.33 |
| 15894 | | |
| 15895 | | 14 models selected |
| 15896 | | |
| 15897 | | > select add #23.27 |
| 15898 | | |
| 15899 | | 15 models selected |
| 15900 | | |
| 15901 | | > select add #23.31 |
| 15902 | | |
| 15903 | | 16 models selected |
| 15904 | | Grouped 16 regions |
| 15905 | | |
| 15906 | | > select add #23.82 |
| 15907 | | |
| 15908 | | 2 models selected |
| 15909 | | |
| 15910 | | > select add #23.29 |
| 15911 | | |
| 15912 | | 3 models selected |
| 15913 | | |
| 15914 | | > select add #23.30 |
| 15915 | | |
| 15916 | | 4 models selected |
| 15917 | | |
| 15918 | | > select add #23.34 |
| 15919 | | |
| 15920 | | 5 models selected |
| 15921 | | |
| 15922 | | > select add #23.23 |
| 15923 | | |
| 15924 | | 6 models selected |
| 15925 | | |
| 15926 | | > select add #23.8 |
| 15927 | | |
| 15928 | | 7 models selected |
| 15929 | | |
| 15930 | | > select add #23.28 |
| 15931 | | |
| 15932 | | 8 models selected |
| 15933 | | |
| 15934 | | > select add #23.7 |
| 15935 | | |
| 15936 | | 9 models selected |
| 15937 | | |
| 15938 | | > select add #23.4 |
| 15939 | | |
| 15940 | | 10 models selected |
| 15941 | | |
| 15942 | | > select add #23.35 |
| 15943 | | |
| 15944 | | 11 models selected |
| 15945 | | |
| 15946 | | > select add #23.81 |
| 15947 | | |
| 15948 | | 12 models selected |
| 15949 | | Grouped 12 regions |
| 15950 | | |
| 15951 | | > select add #23.25 |
| 15952 | | |
| 15953 | | 2 models selected |
| 15954 | | Grouped 2 regions |
| 15955 | | Opened 3xOnly-PflAB_imasked as #27, grid size 240,240,240, pixel 2.1, shown at |
| 15956 | | step 1, values float32 |
| 15957 | | |
| 15958 | | The cached device pixel ratio value was stale on window expose. Please file a |
| 15959 | | QTBUG which explains how to reproduce. |
| 15960 | | |
| 15961 | | > save /Volumes/Backup-95/Chimera-2023/PflB-PflA-project/Start- |
| 15962 | | > from_June2024/July_2024/Final-version_model/Flo_PflA_Local/1xOnly-PflAB.mrc |
| 15963 | | > models #27 |
| 15964 | | |
| 15965 | | > close #23 |
| 15966 | | |
| 15967 | | > show #!26 models |
| 15968 | | |
| 15969 | | > hide #!27 models |
| 15970 | | |
| 15971 | | > hide #!26 models |
| 15972 | | |
| 15973 | | > show #!27 models |
| 15974 | | |
| 15975 | | > show #!17 models |
| 15976 | | |
| 15977 | | > hide #!17 models |
| 15978 | | |
| 15979 | | > show #!15 models |
| 15980 | | |
| 15981 | | > select add #15 |
| 15982 | | |
| 15983 | | 38799 atoms, 39588 bonds, 4776 residues, 10 models selected |
| 15984 | | Alignment identifier is 1 |
| 15985 | | Alignment identifier is 2 |
| 15986 | | Alignment identifier is 3 |
| 15987 | | |
| 15988 | | > select #15.4/Ch:1-2 #15.6/Cj:1-2 #15.8/Cl:1-2 |
| 15989 | | |
| 15990 | | 48 atoms, 45 bonds, 6 residues, 3 models selected |
| 15991 | | |
| 15992 | | > select #15.4/Ch:1-107 #15.6/Cj:1-107 #15.8/Cl:1-107 |
| 15993 | | |
| 15994 | | 2523 atoms, 2544 bonds, 321 residues, 3 models selected |
| 15995 | | 2 [ID: 2] region chains Ch,Cj,Cl [1-107] RMSD: 183.500 |
| 15996 | | |
| 15997 | | |
| 15998 | | > select #15.4/Ch:121-122 #15.6/Cj:121-122 #15.8/Cl:121-122 |
| 15999 | | |
| 16000 | | 51 atoms, 48 bonds, 6 residues, 3 models selected |
| 16001 | | |
| 16002 | | > select #15.4/Ch:1-122 #15.6/Cj:1-122 #15.8/Cl:1-122 |
| 16003 | | |
| 16004 | | 2859 atoms, 2880 bonds, 366 residues, 3 models selected |
| 16005 | | 2 [ID: 2] region chains Ch,Cj,Cl [1-122] RMSD: 179.940 |
| 16006 | | |
| 16007 | | |
| 16008 | | > select #15.4/Ch:135 #15.6/Cj:135 #15.8/Cl:135 |
| 16009 | | |
| 16010 | | 24 atoms, 21 bonds, 3 residues, 3 models selected |
| 16011 | | |
| 16012 | | > select #15.4/Ch:1-135 #15.6/Cj:1-135 #15.8/Cl:1-135 |
| 16013 | | |
| 16014 | | 3153 atoms, 3177 bonds, 405 residues, 3 models selected |
| 16015 | | 2 [ID: 2] region chains Ch,Cj,Cl [1-135] RMSD: 178.301 |
| 16016 | | |
| 16017 | | |
| 16018 | | > hide sel & #!15.4,6 surfaces |
| 16019 | | |
| 16020 | | > hide sel & #!15.4,6 cartoons |
| 16021 | | |
| 16022 | | > view orient |
| 16023 | | |
| 16024 | | > save /Users/shoichi/Desktop/HP-Fig4C2_09172024.png supersample 2 |
| 16025 | | > transparentBackground true |
| 16026 | | |
| 16027 | | > show #15.1 models |
| 16028 | | |
| 16029 | | > show #15.3 models |
| 16030 | | |
| 16031 | | > show #15.5 models |
| 16032 | | |
| 16033 | | > show #15.8 models |
| 16034 | | |
| 16035 | | > show #15.9 models |
| 16036 | | |
| 16037 | | > show #!26 models |
| 16038 | | |
| 16039 | | > combine #15 modelId #28 name 3xPflAB |
| 16040 | | |
| 16041 | | > select add #15 |
| 16042 | | |
| 16043 | | 38799 atoms, 39588 bonds, 4776 residues, 12 models selected |
| 16044 | | |
| 16045 | | > select subtract #15 |
| 16046 | | |
| 16047 | | 4 models selected |
| 16048 | | |
| 16049 | | > hide #!15 models |
| 16050 | | |
| 16051 | | > ui tool show "Fit in Map" |
| 16052 | | |
| 16053 | | The cached device pixel ratio value was stale on window expose. Please file a |
| 16054 | | QTBUG which explains how to reproduce. |
| 16055 | | |
| 16056 | | [Repeated 1 time(s)] |
| 16057 | | |
| 16058 | | > fitmap #28 inMap #26 |
| 16059 | | |
| 16060 | | Fit molecule 3xPflAB (#28) to map 3xOnly-PflAB.mrc (#26) using 38799 atoms |
| 16061 | | average map value = 1.878, steps = 48 |
| 16062 | | shifted from previous position = 1.88 |
| 16063 | | rotated from previous position = 1.35 degrees |
| 16064 | | atoms outside contour = 18849, contour level = 0.037925 |
| 16065 | | |
| 16066 | | Position of 3xPflAB (#28) relative to 3xOnly-PflAB.mrc (#26) coordinates: |
| 16067 | | Matrix rotation and translation |
| 16068 | | 0.99197492 0.04194380 0.11927478 -7.25388896 |
| 16069 | | -0.00861248 0.96359505 -0.26722724 -10.03562167 |
| 16070 | | -0.12614112 0.26405547 0.95622337 -12.21729786 |
| 16071 | | Axis 0.90445517 0.41779579 -0.08606696 |
| 16072 | | Axis point 0.00000000 44.70924253 -28.47666633 |
| 16073 | | Rotation angle (degrees) 17.07979035 |
| 16074 | | Shift along axis -9.70215212 |
| 16075 | | |
| 16076 | | |
| 16077 | | > fitmap #28 inMap #26 |
| 16078 | | |
| 16079 | | Fit molecule 3xPflAB (#28) to map 3xOnly-PflAB.mrc (#26) using 38799 atoms |
| 16080 | | average map value = 1.878, steps = 60 |
| 16081 | | shifted from previous position = 0.0218 |
| 16082 | | rotated from previous position = 0.00175 degrees |
| 16083 | | atoms outside contour = 18848, contour level = 0.037925 |
| 16084 | | |
| 16085 | | Position of 3xPflAB (#28) relative to 3xOnly-PflAB.mrc (#26) coordinates: |
| 16086 | | Matrix rotation and translation |
| 16087 | | 0.99197770 0.04194422 0.11925151 -7.27068129 |
| 16088 | | -0.00862150 0.96359995 -0.26720930 -10.02121140 |
| 16089 | | -0.12611863 0.26403754 0.95623129 -12.21052200 |
| 16090 | | Axis 0.90447225 0.41775398 -0.08609046 |
| 16091 | | Axis point 0.00000000 44.70236205 -28.41007722 |
| 16092 | | Rotation angle (degrees) 17.07826916 |
| 16093 | | Shift along axis -9.71132087 |
| 16094 | | |
| 16095 | | |
| 16096 | | > fitmap #28 inMap #26 |
| 16097 | | |
| 16098 | | Fit molecule 3xPflAB (#28) to map 3xOnly-PflAB.mrc (#26) using 38799 atoms |
| 16099 | | average map value = 1.878, steps = 40 |
| 16100 | | shifted from previous position = 0.00987 |
| 16101 | | rotated from previous position = 0.00587 degrees |
| 16102 | | atoms outside contour = 18849, contour level = 0.037925 |
| 16103 | | |
| 16104 | | Position of 3xPflAB (#28) relative to 3xOnly-PflAB.mrc (#26) coordinates: |
| 16105 | | Matrix rotation and translation |
| 16106 | | 0.99196661 0.04194146 0.11934472 -7.27163799 |
| 16107 | | -0.00858908 0.96359028 -0.26724522 -10.02508686 |
| 16108 | | -0.12620806 0.26407327 0.95620962 -12.20228003 |
| 16109 | | Axis 0.90438160 0.41796667 -0.08601034 |
| 16110 | | Axis point 0.00000000 44.66325190 -28.40049253 |
| 16111 | | Rotation angle (degrees) 17.08240812 |
| 16112 | | Shift along axis -9.71696549 |
| 16113 | | |
| 16114 | | |
| 16115 | | > split #28 |
| 16116 | | |
| 16117 | | Split 3xPflAB (#28) into 9 models |
| 16118 | | Chain information for 3xPflAB Az #28.1 |
| 16119 | | --- |
| 16120 | | Chain | Description |
| 16121 | | Az | No description available |
| 16122 | | |
| 16123 | | Chain information for 3xPflAB BJ #28.2 |
| 16124 | | --- |
| 16125 | | Chain | Description |
| 16126 | | BJ | No description available |
| 16127 | | |
| 16128 | | Chain information for 3xPflAB BL #28.3 |
| 16129 | | --- |
| 16130 | | Chain | Description |
| 16131 | | BL | No description available |
| 16132 | | |
| 16133 | | Chain information for 3xPflAB Ch #28.4 |
| 16134 | | --- |
| 16135 | | Chain | Description |
| 16136 | | Ch | No description available |
| 16137 | | |
| 16138 | | Chain information for 3xPflAB Ci #28.5 |
| 16139 | | --- |
| 16140 | | Chain | Description |
| 16141 | | Ci | No description available |
| 16142 | | |
| 16143 | | Chain information for 3xPflAB Cj #28.6 |
| 16144 | | --- |
| 16145 | | Chain | Description |
| 16146 | | Cj | No description available |
| 16147 | | |
| 16148 | | Chain information for 3xPflAB Ck #28.7 |
| 16149 | | --- |
| 16150 | | Chain | Description |
| 16151 | | Ck | No description available |
| 16152 | | |
| 16153 | | Chain information for 3xPflAB Cl #28.8 |
| 16154 | | --- |
| 16155 | | Chain | Description |
| 16156 | | Cl | No description available |
| 16157 | | |
| 16158 | | Chain information for 3xPflAB Cm #28.9 |
| 16159 | | --- |
| 16160 | | Chain | Description |
| 16161 | | Cm | No description available |
| 16162 | | |
| 16163 | | |
| 16164 | | > hide #28.1 models |
| 16165 | | |
| 16166 | | > hide #28.2 models |
| 16167 | | |
| 16168 | | > show #28.2 models |
| 16169 | | |
| 16170 | | > hide #28.3 models |
| 16171 | | |
| 16172 | | > hide #28.5 models |
| 16173 | | |
| 16174 | | > hide #28.8 models |
| 16175 | | |
| 16176 | | > hide #28.9 models |
| 16177 | | |
| 16178 | | > select add #28 |
| 16179 | | |
| 16180 | | 38799 atoms, 39588 bonds, 4776 residues, 10 models selected |
| 16181 | | |
| 16182 | | > select subtract #28 |
| 16183 | | |
| 16184 | | Nothing selected |
| 16185 | | |
| 16186 | | > select add #28.2 |
| 16187 | | |
| 16188 | | 4995 atoms, 5088 bonds, 612 residues, 1 model selected |
| 16189 | | |
| 16190 | | > select add #28.4 |
| 16191 | | |
| 16192 | | 11824 atoms, 12060 bonds, 1455 residues, 2 models selected |
| 16193 | | |
| 16194 | | > select add #28.6 |
| 16195 | | |
| 16196 | | 18653 atoms, 19032 bonds, 2298 residues, 3 models selected |
| 16197 | | |
| 16198 | | > select add #28.7 |
| 16199 | | |
| 16200 | | 19762 atoms, 20168 bonds, 2435 residues, 4 models selected |
| 16201 | | |
| 16202 | | > hide sel cartoons |
| 16203 | | |
| 16204 | | > show sel surfaces |
| 16205 | | |
| 16206 | | > select add #27 |
| 16207 | | |
| 16208 | | 19762 atoms, 20168 bonds, 2435 residues, 10 models selected |
| 16209 | | |
| 16210 | | > select add #28 |
| 16211 | | |
| 16212 | | 38799 atoms, 39588 bonds, 4776 residues, 16 models selected |
| 16213 | | |
| 16214 | | > select subtract #27 |
| 16215 | | |
| 16216 | | 38799 atoms, 39588 bonds, 4776 residues, 14 models selected |
| 16217 | | Alignment identifier is 1 |
| 16218 | | Alignment identifier is 2 |
| 16219 | | Alignment identifier is 3 |
| 16220 | | |
| 16221 | | > select #28.4/Ch:1-2 #28.6/Cj:1-2 #28.8/Cl:1-2 |
| 16222 | | |
| 16223 | | 48 atoms, 45 bonds, 6 residues, 3 models selected |
| 16224 | | |
| 16225 | | > select #28.4/Ch:1-135 #28.6/Cj:1-135 #28.8/Cl:1-135 |
| 16226 | | |
| 16227 | | 3153 atoms, 3177 bonds, 405 residues, 3 models selected |
| 16228 | | 2 [ID: 2] region chains Ch,Cj,Cl [1-135] RMSD: 178.301 |
| 16229 | | |
| 16230 | | |
| 16231 | | > hide sel & #!28.4,6 surfaces |
| 16232 | | |
| 16233 | | > hide #!26 models |
| 16234 | | |
| 16235 | | > view orient |
| 16236 | | |
| 16237 | | > save /Users/shoichi/Desktop/HP-Fig4C2_09172024.png supersample 2 |
| 16238 | | > transparentBackground true |
| 16239 | | |
| 16240 | | > select add #28.4 |
| 16241 | | |
| 16242 | | 8931 atoms, 9090 bonds, 1113 residues, 5 models selected |
| 16243 | | |
| 16244 | | > select add #28.6 |
| 16245 | | |
| 16246 | | 14709 atoms, 15003 bonds, 1821 residues, 5 models selected |
| 16247 | | |
| 16248 | | > select add #28.8 |
| 16249 | | |
| 16250 | | 20487 atoms, 20916 bonds, 2529 residues, 5 models selected |
| 16251 | | |
| 16252 | | > select subtract #28.8 |
| 16253 | | |
| 16254 | | 13658 atoms, 13944 bonds, 1686 residues, 4 models selected |
| 16255 | | |
| 16256 | | > select add #28.7 |
| 16257 | | |
| 16258 | | 14767 atoms, 15080 bonds, 1823 residues, 5 models selected |
| 16259 | | |
| 16260 | | > select add #28.2 |
| 16261 | | |
| 16262 | | 19762 atoms, 20168 bonds, 2435 residues, 7 models selected |
| 16263 | | |
| 16264 | | > hide sel surfaces |
| 16265 | | |
| 16266 | | > show sel cartoons |
| 16267 | | |
| 16268 | | > select add #28 |
| 16269 | | |
| 16270 | | 38799 atoms, 39588 bonds, 4776 residues, 14 models selected |
| 16271 | | |
| 16272 | | > select subtract #28 |
| 16273 | | |
| 16274 | | 4 models selected |
| 16275 | | |
| 16276 | | > select add #28.2 |
| 16277 | | |
| 16278 | | 4995 atoms, 5088 bonds, 612 residues, 1 model selected |
| 16279 | | |
| 16280 | | > select add #28.4 |
| 16281 | | |
| 16282 | | 11824 atoms, 12060 bonds, 1455 residues, 3 models selected |
| 16283 | | |
| 16284 | | > select add #28.6 |
| 16285 | | |
| 16286 | | 18653 atoms, 19032 bonds, 2298 residues, 5 models selected |
| 16287 | | |
| 16288 | | > select add #28.7 |
| 16289 | | |
| 16290 | | 19762 atoms, 20168 bonds, 2435 residues, 7 models selected |
| 16291 | | |
| 16292 | | The cached device pixel ratio value was stale on window expose. Please file a |
| 16293 | | QTBUG which explains how to reproduce. |
| 16294 | | |
| 16295 | | > save /Volumes/Backup-95/Chimera-2023/PflB-PflA-project/Start- |
| 16296 | | > from_June2024/July_2024/Final-version_model/Flo_PflA_Local/1X_PflAB- |
| 16297 | | > Sep18-2024.pdb selectedOnly true |
| 16298 | | |
| 16299 | | > select add #28 |
| 16300 | | |
| 16301 | | 38799 atoms, 39588 bonds, 4776 residues, 14 models selected |
| 16302 | | |
| 16303 | | > select subtract #28 |
| 16304 | | |
| 16305 | | 4 models selected |
| 16306 | | |
| 16307 | | > hide #!28 models |
| 16308 | | |
| 16309 | | > open /Volumes/Backup-95/Chimera-2023/PflB-PflA-project/Start- |
| 16310 | | > from_June2024/July_2024/Final-version_model/Flo_PflA_Local/1X_PflAB- |
| 16311 | | > Sep18-2024.pdb |
| 16312 | | |
| 16313 | | Chain information for 1X_PflAB-Sep18-2024.pdb |
| 16314 | | --- |
| 16315 | | Chain | Description |
| 16316 | | 23.1/BJ | No description available |
| 16317 | | 23.2/Ch 23.3/Cj | No description available |
| 16318 | | 23.4/Ck | No description available |
| 16319 | | |
| 16320 | | |
| 16321 | | > combine #23 modelId #29 name 1xPflAB-Sep18-2024 |
| 16322 | | |
| 16323 | | > show #!28 models |
| 16324 | | |
| 16325 | | > hide #!28 models |
| 16326 | | |
| 16327 | | > show #!26 models |
| 16328 | | |
| 16329 | | > view orient |
| 16330 | | |
| 16331 | | > sym #29 C18 copies true center #29 |
| 16332 | | |
| 16333 | | Made 18 copies for 1xPflAB-Sep18-2024 symmetry C18 |
| 16334 | | |
| 16335 | | > close #30 |
| 16336 | | |
| 16337 | | > show #!3 models |
| 16338 | | |
| 16339 | | > hide #!3 models |
| 16340 | | |
| 16341 | | > show #!2 models |
| 16342 | | |
| 16343 | | > hide #!2 models |
| 16344 | | |
| 16345 | | > show #!1 models |
| 16346 | | |
| 16347 | | > ui tool show "Segment Map" |
| 16348 | | |
| 16349 | | Segmenting PflA-2.1A-230911.mrc, density threshold 0.184695 |
| 16350 | | Showing 295 region surfaces |
| 16351 | | 3349 watershed regions, grouped to 295 regions |
| 16352 | | Showing PflA-2.1A-230911.seg - 295 regions, 295 surfaces |
| 16353 | | |
| 16354 | | > hide #!1 models |
| 16355 | | |
| 16356 | | > select #30.16 |
| 16357 | | |
| 16358 | | 1 model selected |
| 16359 | | |
| 16360 | | > select add #30.145 |
| 16361 | | |
| 16362 | | 2 models selected |
| 16363 | | |
| 16364 | | > select add #30.256 |
| 16365 | | |
| 16366 | | 3 models selected |
| 16367 | | Grouped 3 regions |
| 16368 | | Opened PflA-2.1A-230911_imasked as #31, grid size 240,240,240, pixel 2.1, |
| 16369 | | shown at step 1, values float32 |
| 16370 | | |
| 16371 | | The cached device pixel ratio value was stale on window expose. Please file a |
| 16372 | | QTBUG which explains how to reproduce. |
| 16373 | | |
| 16374 | | > save /Volumes/Backup-95/Chimera-2023/PflB-PflA-project/Start- |
| 16375 | | > from_June2024/July_2024/Final-version_model/Flo_PflA_Local/Rod.mrc models |
| 16376 | | > #31 |
| 16377 | | |
| 16378 | | > close #30 |
| 16379 | | |
| 16380 | | > view orient |
| 16381 | | |
| 16382 | | > sym #29 C18 copies true center #31 |
| 16383 | | |
| 16384 | | Made 18 copies for 1xPflAB-Sep18-2024 symmetry C18 |
| 16385 | | |
| 16386 | | > show #29 models |
| 16387 | | |
| 16388 | | > hide #!30 models |
| 16389 | | |
| 16390 | | > show #!30 models |
| 16391 | | |
| 16392 | | > hide #30.2 models |
| 16393 | | |
| 16394 | | > show #30.2 models |
| 16395 | | |
| 16396 | | > hide #30.1 models |
| 16397 | | |
| 16398 | | > hide #30.3 models |
| 16399 | | |
| 16400 | | > hide #30.4 models |
| 16401 | | |
| 16402 | | > hide #30.5 models |
| 16403 | | |
| 16404 | | > hide #30.6 models |
| 16405 | | |
| 16406 | | > hide #30.7 models |
| 16407 | | |
| 16408 | | > hide #30.8 models |
| 16409 | | |
| 16410 | | > hide #30.9 models |
| 16411 | | |
| 16412 | | > hide #30.10 models |
| 16413 | | |
| 16414 | | > hide #30.11 models |
| 16415 | | |
| 16416 | | > hide #30.12 models |
| 16417 | | |
| 16418 | | > hide #30.13 models |
| 16419 | | |
| 16420 | | > hide #30.14 models |
| 16421 | | |
| 16422 | | > hide #30.15 models |
| 16423 | | |
| 16424 | | > hide #30.16 models |
| 16425 | | |
| 16426 | | > hide #30.17 models |
| 16427 | | |
| 16428 | | > select add #30.2 |
| 16429 | | |
| 16430 | | 19762 atoms, 20168 bonds, 2435 residues, 1 model selected |
| 16431 | | |
| 16432 | | > ui mousemode right "rotate selected models" |
| 16433 | | |
| 16434 | | > view matrix models |
| 16435 | | > #30.2,0.90121,-0.43338,0,-9.7896,0.43338,0.90121,0,76.344,0,0,1,0 |
| 16436 | | |
| 16437 | | > ui mousemode right "translate selected models" |
| 16438 | | |
| 16439 | | > view matrix models |
| 16440 | | > #30.2,0.90121,-0.43338,0,-8.5295,0.43338,0.90121,0,88.133,0,0,1,0 |
| 16441 | | |
| 16442 | | > select subtract #30.2 |
| 16443 | | |
| 16444 | | Nothing selected |
| 16445 | | |
| 16446 | | > hide #30.2 models |
| 16447 | | |
| 16448 | | > show #30.2 models |
| 16449 | | |
| 16450 | | > hide #30.2 models |
| 16451 | | |
| 16452 | | > show #30.2 models |
| 16453 | | |
| 16454 | | > select add #30.2 |
| 16455 | | |
| 16456 | | 19762 atoms, 20168 bonds, 2435 residues, 1 model selected |
| 16457 | | |
| 16458 | | > save /Volumes/Backup-95/Chimera-2023/PflB-PflA-project/Start- |
| 16459 | | > from_June2024/July_2024/Final-version_model/Flo_PflA_Local/1xPflAB-P2.pdb |
| 16460 | | > selectedOnly true |
| 16461 | | |
| 16462 | | > hide #!31 models |
| 16463 | | |
| 16464 | | > select subtract #30.2 |
| 16465 | | |
| 16466 | | Nothing selected |
| 16467 | | |
| 16468 | | > hide #30.2 models |
| 16469 | | |
| 16470 | | > select add #30.18 |
| 16471 | | |
| 16472 | | 19762 atoms, 20168 bonds, 2435 residues, 1 model selected |
| 16473 | | |
| 16474 | | > save /Volumes/Backup-95/Chimera-2023/PflB-PflA-project/Start- |
| 16475 | | > from_June2024/July_2024/Final-version_model/Flo_PflA_Local/1xPflAB-P3.pdb |
| 16476 | | > selectedOnly true |
| 16477 | | |
| 16478 | | > open /Volumes/Backup-95/Chimera-2023/PflB-PflA-project/Start- |
| 16479 | | > from_June2024/July_2024/Final-version_model/Flo_PflA_Local/1xPflAB-P2.pdb |
| 16480 | | |
| 16481 | | Summary of feedback from opening /Volumes/Backup-95/Chimera-2023/PflB-PflA- |
| 16482 | | project/Start-from_June2024/July_2024/Final- |
| 16483 | | version_model/Flo_PflA_Local/1xPflAB-P2.pdb |
| 16484 | | --- |
| 16485 | | warnings | Start residue of secondary structure not found: HELIX 1 1 TYRA0 183 ASPA0 196 1 14 |
| 16486 | | Start residue of secondary structure not found: HELIX 2 2 TYRA0 200 ASNA0 213 |
| 16487 | | 1 14 |
| 16488 | | Start residue of secondary structure not found: HELIX 3 3 LYSA0 220 LEUA0 234 |
| 16489 | | 1 15 |
| 16490 | | Start residue of secondary structure not found: HELIX 4 4 LYSA0 238 ASNA0 251 |
| 16491 | | 1 14 |
| 16492 | | Start residue of secondary structure not found: HELIX 5 5 ILEA0 258 GLUA0 271 |
| 16493 | | 1 14 |
| 16494 | | 37 messages similar to the above omitted |
| 16495 | | |
| 16496 | | Chain information for 1xPflAB-P2.pdb #32 |
| 16497 | | --- |
| 16498 | | Chain | Description |
| 16499 | | BJ | No description available |
| 16500 | | Ch Cj | No description available |
| 16501 | | Ck | No description available |
| 16502 | | |
| 16503 | | |
| 16504 | | > open /Volumes/Backup-95/Chimera-2023/PflB-PflA-project/Start- |
| 16505 | | > from_June2024/July_2024/Final-version_model/Flo_PflA_Local/1xPflAB-P3.pdb |
| 16506 | | |
| 16507 | | Summary of feedback from opening /Volumes/Backup-95/Chimera-2023/PflB-PflA- |
| 16508 | | project/Start-from_June2024/July_2024/Final- |
| 16509 | | version_model/Flo_PflA_Local/1xPflAB-P3.pdb |
| 16510 | | --- |
| 16511 | | warnings | Start residue of secondary structure not found: HELIX 1 1 TYRA0 183 ASPA0 196 1 14 |
| 16512 | | Start residue of secondary structure not found: HELIX 2 2 TYRA0 200 ASNA0 213 |
| 16513 | | 1 14 |
| 16514 | | Start residue of secondary structure not found: HELIX 3 3 LYSA0 220 LEUA0 234 |
| 16515 | | 1 15 |
| 16516 | | Start residue of secondary structure not found: HELIX 4 4 LYSA0 238 ASNA0 251 |
| 16517 | | 1 14 |
| 16518 | | Start residue of secondary structure not found: HELIX 5 5 ILEA0 258 GLUA0 271 |
| 16519 | | 1 14 |
| 16520 | | 37 messages similar to the above omitted |
| 16521 | | |
| 16522 | | Chain information for 1xPflAB-P3.pdb #33 |
| 16523 | | --- |
| 16524 | | Chain | Description |
| 16525 | | BJ | No description available |
| 16526 | | Ch Cj | No description available |
| 16527 | | Ck | No description available |
| 16528 | | |
| 16529 | | |
| 16530 | | > select add #30 |
| 16531 | | |
| 16532 | | 355716 atoms, 363024 bonds, 43830 residues, 19 models selected |
| 16533 | | |
| 16534 | | > select subtract #30 |
| 16535 | | |
| 16536 | | Nothing selected |
| 16537 | | |
| 16538 | | > hide #!30 models |
| 16539 | | |
| 16540 | | > hide #!23 models |
| 16541 | | |
| 16542 | | > hide #!27 models |
| 16543 | | |
| 16544 | | > fitmap #32 inMap #26 |
| 16545 | | |
| 16546 | | Fit molecule 1xPflAB-P2.pdb (#32) to map 3xOnly-PflAB.mrc (#26) using 19762 |
| 16547 | | atoms |
| 16548 | | average map value = 1.609, steps = 76 |
| 16549 | | shifted from previous position = 4.75 |
| 16550 | | rotated from previous position = 5.97 degrees |
| 16551 | | atoms outside contour = 10293, contour level = 0.037925 |
| 16552 | | |
| 16553 | | Position of 1xPflAB-P2.pdb (#32) relative to 3xOnly-PflAB.mrc (#26) |
| 16554 | | coordinates: |
| 16555 | | Matrix rotation and translation |
| 16556 | | 0.99473557 0.10193329 0.01052391 -18.34266851 |
| 16557 | | -0.10172536 0.99463679 -0.01869760 -0.21008206 |
| 16558 | | -0.01237338 0.01752862 0.99976980 -2.55026439 |
| 16559 | | Axis 0.17406499 0.11002022 -0.97856882 |
| 16560 | | Axis point -10.67948235 178.16616913 0.00000000 |
| 16561 | | Rotation angle (degrees) 5.97297980 |
| 16562 | | Shift along axis -0.72032053 |
| 16563 | | |
| 16564 | | |
| 16565 | | > fitmap #32 inMap #26 |
| 16566 | | |
| 16567 | | Fit molecule 1xPflAB-P2.pdb (#32) to map 3xOnly-PflAB.mrc (#26) using 19762 |
| 16568 | | atoms |
| 16569 | | average map value = 1.609, steps = 48 |
| 16570 | | shifted from previous position = 0.0247 |
| 16571 | | rotated from previous position = 0.0292 degrees |
| 16572 | | atoms outside contour = 10296, contour level = 0.037925 |
| 16573 | | |
| 16574 | | Position of 1xPflAB-P2.pdb (#32) relative to 3xOnly-PflAB.mrc (#26) |
| 16575 | | coordinates: |
| 16576 | | Matrix rotation and translation |
| 16577 | | 0.99470505 0.10225763 0.01025897 -18.39976411 |
| 16578 | | -0.10205776 0.99460805 -0.01841292 -0.16726036 |
| 16579 | | -0.01208652 0.01726842 0.99977783 -2.53376431 |
| 16580 | | Axis 0.17104502 0.10711715 -0.97942305 |
| 16581 | | Axis point -10.33923583 178.25674648 0.00000000 |
| 16582 | | Rotation angle (degrees) 5.98706579 |
| 16583 | | Shift along axis -0.68347725 |
| 16584 | | |
| 16585 | | |
| 16586 | | > fitmap #32 inMap #26 |
| 16587 | | |
| 16588 | | Fit molecule 1xPflAB-P2.pdb (#32) to map 3xOnly-PflAB.mrc (#26) using 19762 |
| 16589 | | atoms |
| 16590 | | average map value = 1.609, steps = 44 |
| 16591 | | shifted from previous position = 0.0147 |
| 16592 | | rotated from previous position = 0.0133 degrees |
| 16593 | | atoms outside contour = 10294, contour level = 0.037925 |
| 16594 | | |
| 16595 | | Position of 1xPflAB-P2.pdb (#32) relative to 3xOnly-PflAB.mrc (#26) |
| 16596 | | coordinates: |
| 16597 | | Matrix rotation and translation |
| 16598 | | 0.99471763 0.10212357 0.01037345 -18.37068452 |
| 16599 | | -0.10191993 0.99461944 -0.01856086 -0.19105890 |
| 16600 | | -0.01221314 0.01740555 0.99977392 -2.54759165 |
| 16601 | | Axis 0.17256978 0.10837229 -0.97901742 |
| 16602 | | Axis point -10.53934899 178.16422167 0.00000000 |
| 16603 | | Rotation angle (degrees) 5.98155561 |
| 16604 | | Shift along axis -0.69679389 |
| 16605 | | |
| 16606 | | |
| 16607 | | > select add #32 |
| 16608 | | |
| 16609 | | 19762 atoms, 20168 bonds, 2435 residues, 1 model selected |
| 16610 | | |
| 16611 | | > view matrix models |
| 16612 | | > #32,0.99472,0.10212,0.010373,-17.328,-0.10192,0.99462,-0.018561,-1.3395,-0.012213,0.017406,0.99977,-2.5476 |
| 16613 | | |
| 16614 | | > fitmap #32 inMap #26 |
| 16615 | | |
| 16616 | | Fit molecule 1xPflAB-P2.pdb (#32) to map 3xOnly-PflAB.mrc (#26) using 19762 |
| 16617 | | atoms |
| 16618 | | average map value = 1.609, steps = 72 |
| 16619 | | shifted from previous position = 1.53 |
| 16620 | | rotated from previous position = 0.00799 degrees |
| 16621 | | atoms outside contour = 10291, contour level = 0.037925 |
| 16622 | | |
| 16623 | | Position of 1xPflAB-P2.pdb (#32) relative to 3xOnly-PflAB.mrc (#26) |
| 16624 | | coordinates: |
| 16625 | | Matrix rotation and translation |
| 16626 | | 0.99472682 0.10202677 0.01044519 -18.35075180 |
| 16627 | | -0.10182104 0.99462828 -0.01862955 -0.21776303 |
| 16628 | | -0.01228980 0.01746777 0.99977189 -2.52370286 |
| 16629 | | Axis 0.17332496 0.10916437 -0.97879599 |
| 16630 | | Axis point -10.74529701 178.05945517 0.00000000 |
| 16631 | | Rotation angle (degrees) 5.97715484 |
| 16632 | | Shift along axis -0.73422497 |
| 16633 | | |
| 16634 | | |
| 16635 | | > view matrix models |
| 16636 | | > #32,0.99473,0.10203,0.010445,-15.954,-0.10182,0.99463,-0.01863,0.054505,-0.01229,0.017468,0.99977,-2.5237 |
| 16637 | | |
| 16638 | | > fitmap #32 inMap #26 |
| 16639 | | |
| 16640 | | Fit molecule 1xPflAB-P2.pdb (#32) to map 3xOnly-PflAB.mrc (#26) using 19762 |
| 16641 | | atoms |
| 16642 | | average map value = 1.609, steps = 52 |
| 16643 | | shifted from previous position = 2.43 |
| 16644 | | rotated from previous position = 0.016 degrees |
| 16645 | | atoms outside contour = 10292, contour level = 0.037925 |
| 16646 | | |
| 16647 | | Position of 1xPflAB-P2.pdb (#32) relative to 3xOnly-PflAB.mrc (#26) |
| 16648 | | coordinates: |
| 16649 | | Matrix rotation and translation |
| 16650 | | 0.99473661 0.10191776 0.01057617 -18.35162729 |
| 16651 | | -0.10170703 0.99463581 -0.01884877 -0.20848970 |
| 16652 | | -0.01244046 0.01767389 0.99976641 -2.57228974 |
| 16653 | | Axis 0.17546256 0.11057672 -0.97825645 |
| 16654 | | Axis point -10.66158881 178.26136266 0.00000000 |
| 16655 | | Rotation angle (degrees) 5.97389706 |
| 16656 | | Shift along axis -0.72671868 |
| 16657 | | |
| 16658 | | |
| 16659 | | > view matrix models |
| 16660 | | > #32,0.99474,0.10192,0.010576,-16.201,-0.10171,0.99464,-0.018849,-2.3657,-0.01244,0.017674,0.99977,-2.5723 |
| 16661 | | |
| 16662 | | > select subtract #32 |
| 16663 | | |
| 16664 | | Nothing selected |
| 16665 | | |
| 16666 | | > fitmap #33 inMap #26 |
| 16667 | | |
| 16668 | | Fit molecule 1xPflAB-P3.pdb (#33) to map 3xOnly-PflAB.mrc (#26) using 19762 |
| 16669 | | atoms |
| 16670 | | average map value = 2.097, steps = 64 |
| 16671 | | shifted from previous position = 9.88 |
| 16672 | | rotated from previous position = 1.13 degrees |
| 16673 | | atoms outside contour = 9345, contour level = 0.037925 |
| 16674 | | |
| 16675 | | Position of 1xPflAB-P3.pdb (#33) relative to 3xOnly-PflAB.mrc (#26) |
| 16676 | | coordinates: |
| 16677 | | Matrix rotation and translation |
| 16678 | | 0.99984804 -0.01417461 0.01014753 -3.52645977 |
| 16679 | | 0.01408196 0.99985903 0.00914379 -9.84630785 |
| 16680 | | -0.01027571 -0.00899950 0.99990670 0.34137374 |
| 16681 | | Axis -0.46162681 0.51963656 0.71894265 |
| 16682 | | Axis point 575.92914554 -360.58206793 0.00000000 |
| 16683 | | Rotation angle (degrees) 1.12601899 |
| 16684 | | Shift along axis -3.24316504 |
| 16685 | | |
| 16686 | | |
| 16687 | | > fitmap #33 inMap #26 |
| 16688 | | |
| 16689 | | Fit molecule 1xPflAB-P3.pdb (#33) to map 3xOnly-PflAB.mrc (#26) using 19762 |
| 16690 | | atoms |
| 16691 | | average map value = 2.097, steps = 24 |
| 16692 | | shifted from previous position = 0.00676 |
| 16693 | | rotated from previous position = 0.00417 degrees |
| 16694 | | atoms outside contour = 9345, contour level = 0.037925 |
| 16695 | | |
| 16696 | | Position of 1xPflAB-P3.pdb (#33) relative to 3xOnly-PflAB.mrc (#26) |
| 16697 | | coordinates: |
| 16698 | | Matrix rotation and translation |
| 16699 | | 0.99984849 -0.01418178 0.01009336 -3.52415361 |
| 16700 | | 0.01409012 0.99985936 0.00909589 -9.84776388 |
| 16701 | | -0.01022093 -0.00895230 0.99990769 0.33633104 |
| 16702 | | Axis -0.46025304 0.51804168 0.72097154 |
| 16703 | | Axis point 576.30743341 -359.71068987 0.00000000 |
| 16704 | | Rotation angle (degrees) 1.12345930 |
| 16705 | | Shift along axis -3.23706458 |
| 16706 | | |
| 16707 | | |
| 16708 | | > fitmap #33 inMap #26 |
| 16709 | | |
| 16710 | | Fit molecule 1xPflAB-P3.pdb (#33) to map 3xOnly-PflAB.mrc (#26) using 19762 |
| 16711 | | atoms |
| 16712 | | average map value = 2.097, steps = 28 |
| 16713 | | shifted from previous position = 0.00519 |
| 16714 | | rotated from previous position = 0.00508 degrees |
| 16715 | | atoms outside contour = 9343, contour level = 0.037925 |
| 16716 | | |
| 16717 | | Position of 1xPflAB-P3.pdb (#33) relative to 3xOnly-PflAB.mrc (#26) |
| 16718 | | coordinates: |
| 16719 | | Matrix rotation and translation |
| 16720 | | 0.99984932 -0.01418343 0.01000828 -3.52396480 |
| 16721 | | 0.01409227 0.99985910 0.00912103 -9.84536330 |
| 16722 | | -0.01013624 -0.00897861 0.99990832 0.32653865 |
| 16723 | | Axis -0.46228627 0.51451490 0.72219514 |
| 16724 | | Axis point 578.18872638 -358.91993357 0.00000000 |
| 16725 | | Rotation angle (degrees) 1.12170651 |
| 16726 | | Shift along axis -3.20068097 |
| 16727 | | |
| 16728 | | |
| 16729 | | > select add #33 |
| 16730 | | |
| 16731 | | 19762 atoms, 20168 bonds, 2435 residues, 1 model selected |
| 16732 | | |
| 16733 | | > ui mousemode right "rotate selected models" |
| 16734 | | |
| 16735 | | > view matrix models |
| 16736 | | > #33,0.99973,0.020993,0.010323,-1.3467,-0.021084,0.99974,0.0087634,-9.5356,-0.010136,-0.0089786,0.99991,0.32654 |
| 16737 | | |
| 16738 | | > ui mousemode right "translate selected models" |
| 16739 | | |
| 16740 | | > view matrix models |
| 16741 | | > #33,0.99973,0.020993,0.010323,0.99315,-0.021084,0.99974,0.0087634,-13.601,-0.010136,-0.0089786,0.99991,0.32654 |
| 16742 | | |
| 16743 | | > view matrix models |
| 16744 | | > #33,0.99973,0.020993,0.010323,4.8889,-0.021084,0.99974,0.0087634,-14.985,-0.010136,-0.0089786,0.99991,0.32394 |
| 16745 | | |
| 16746 | | > fitmap #33 inMap #26 |
| 16747 | | |
| 16748 | | Fit molecule 1xPflAB-P3.pdb (#33) to map 3xOnly-PflAB.mrc (#26) using 19762 |
| 16749 | | atoms |
| 16750 | | average map value = 2.097, steps = 72 |
| 16751 | | shifted from previous position = 9.49 |
| 16752 | | rotated from previous position = 2.01 degrees |
| 16753 | | atoms outside contour = 9338, contour level = 0.037925 |
| 16754 | | |
| 16755 | | Position of 1xPflAB-P3.pdb (#33) relative to 3xOnly-PflAB.mrc (#26) |
| 16756 | | coordinates: |
| 16757 | | Matrix rotation and translation |
| 16758 | | 0.99984739 -0.01410746 0.01030409 -3.54810052 |
| 16759 | | 0.01401132 0.99985818 0.00934308 -9.84531491 |
| 16760 | | -0.01043444 -0.00919728 0.99990326 0.37354334 |
| 16761 | | Axis -0.46873867 0.52431284 0.71090091 |
| 16762 | | Axis point 577.97851061 -365.18963893 0.00000000 |
| 16763 | | Rotation angle (degrees) 1.13320465 |
| 16764 | | Shift along axis -3.23334081 |
| 16765 | | |
| 16766 | | |
| 16767 | | > select add #32 |
| 16768 | | |
| 16769 | | 39524 atoms, 40336 bonds, 4870 residues, 2 models selected |
| 16770 | | |
| 16771 | | > split #32 |
| 16772 | | |
| 16773 | | Split 1xPflAB-P2.pdb (#32) into 4 models |
| 16774 | | Chain information for 1xPflAB-P2.pdb BJ #32.1 |
| 16775 | | --- |
| 16776 | | Chain | Description |
| 16777 | | BJ | No description available |
| 16778 | | |
| 16779 | | Chain information for 1xPflAB-P2.pdb Ch #32.2 |
| 16780 | | --- |
| 16781 | | Chain | Description |
| 16782 | | Ch | No description available |
| 16783 | | |
| 16784 | | Chain information for 1xPflAB-P2.pdb Cj #32.3 |
| 16785 | | --- |
| 16786 | | Chain | Description |
| 16787 | | Cj | No description available |
| 16788 | | |
| 16789 | | Chain information for 1xPflAB-P2.pdb Ck #32.4 |
| 16790 | | --- |
| 16791 | | Chain | Description |
| 16792 | | Ck | No description available |
| 16793 | | |
| 16794 | | |
| 16795 | | > split #33 |
| 16796 | | |
| 16797 | | Split 1xPflAB-P3.pdb (#33) into 4 models |
| 16798 | | Chain information for 1xPflAB-P3.pdb BJ #33.1 |
| 16799 | | --- |
| 16800 | | Chain | Description |
| 16801 | | BJ | No description available |
| 16802 | | |
| 16803 | | Chain information for 1xPflAB-P3.pdb Ch #33.2 |
| 16804 | | --- |
| 16805 | | Chain | Description |
| 16806 | | Ch | No description available |
| 16807 | | |
| 16808 | | Chain information for 1xPflAB-P3.pdb Cj #33.3 |
| 16809 | | --- |
| 16810 | | Chain | Description |
| 16811 | | Cj | No description available |
| 16812 | | |
| 16813 | | Chain information for 1xPflAB-P3.pdb Ck #33.4 |
| 16814 | | --- |
| 16815 | | Chain | Description |
| 16816 | | Ck | No description available |
| 16817 | | |
| 16818 | | |
| 16819 | | > hide #32.1 models |
| 16820 | | |
| 16821 | | > show #32.1 models |
| 16822 | | |
| 16823 | | > hide #32.2 models |
| 16824 | | |
| 16825 | | > show #32.2 models |
| 16826 | | |
| 16827 | | > hide #32.2 models |
| 16828 | | |
| 16829 | | > hide #32.3 models |
| 16830 | | |
| 16831 | | > show #32.3 models |
| 16832 | | |
| 16833 | | > hide #32.3 models |
| 16834 | | |
| 16835 | | > show #32.3 models |
| 16836 | | |
| 16837 | | > hide #33.1 models |
| 16838 | | |
| 16839 | | > show #33.1 models |
| 16840 | | |
| 16841 | | > hide #33.2 models |
| 16842 | | |
| 16843 | | > show #33.2 models |
| 16844 | | |
| 16845 | | > hide #33.3 models |
| 16846 | | |
| 16847 | | > select add #33.4 |
| 16848 | | |
| 16849 | | 1109 atoms, 1136 bonds, 137 residues, 1 model selected |
| 16850 | | |
| 16851 | | > select subtract #33.4 |
| 16852 | | |
| 16853 | | Nothing selected |
| 16854 | | |
| 16855 | | > select add #33.2 |
| 16856 | | |
| 16857 | | 6829 atoms, 6972 bonds, 843 residues, 1 model selected |
| 16858 | | Alignment identifier is 33.2/Ch |
| 16859 | | |
| 16860 | | > select #33.2/Ch:1-2 |
| 16861 | | |
| 16862 | | 16 atoms, 15 bonds, 2 residues, 1 model selected |
| 16863 | | |
| 16864 | | > select #33.2/Ch:1-135 |
| 16865 | | |
| 16866 | | 1051 atoms, 1059 bonds, 135 residues, 1 model selected |
| 16867 | | |
| 16868 | | > hide sel cartoons |
| 16869 | | |
| 16870 | | Drag select of 26 3xOnly-PflAB.mrc , 191 residues |
| 16871 | | |
| 16872 | | > hide sel cartoons |
| 16873 | | |
| 16874 | | > hide sel surfaces |
| 16875 | | |
| 16876 | | > select #33.2/Ch:315 |
| 16877 | | |
| 16878 | | 4 atoms, 3 bonds, 1 residue, 1 model selected |
| 16879 | | |
| 16880 | | > select #33.2/Ch:315-841 |
| 16881 | | |
| 16882 | | 4318 atoms, 4420 bonds, 527 residues, 1 model selected |
| 16883 | | |
| 16884 | | > show sel surfaces |
| 16885 | | |
| 16886 | | > select #33.2/Ch:841-842 |
| 16887 | | |
| 16888 | | 20 atoms, 20 bonds, 2 residues, 1 model selected |
| 16889 | | |
| 16890 | | > select #33.2/Ch:838-842 |
| 16891 | | |
| 16892 | | 42 atoms, 42 bonds, 5 residues, 1 model selected |
| 16893 | | |
| 16894 | | > hide sel surfaces |
| 16895 | | |
| 16896 | | > select add #33.2 |
| 16897 | | |
| 16898 | | 6829 atoms, 6972 bonds, 843 residues, 2 models selected |
| 16899 | | |
| 16900 | | > show sel surfaces |
| 16901 | | |
| 16902 | | > select #33.2/Ch:1-2 |
| 16903 | | |
| 16904 | | 16 atoms, 15 bonds, 2 residues, 1 model selected |
| 16905 | | |
| 16906 | | > select #33.2/Ch:1-135 |
| 16907 | | |
| 16908 | | 1051 atoms, 1059 bonds, 135 residues, 1 model selected |
| 16909 | | |
| 16910 | | > hide sel surfaces |
| 16911 | | |
| 16912 | | > select add #33.2 |
| 16913 | | |
| 16914 | | 6829 atoms, 6972 bonds, 843 residues, 2 models selected |
| 16915 | | |
| 16916 | | > select add #33 |
| 16917 | | |
| 16918 | | 19762 atoms, 20168 bonds, 2435 residues, 6 models selected |
| 16919 | | |
| 16920 | | > select subtract #33 |
| 16921 | | |
| 16922 | | 1 model selected |
| 16923 | | |
| 16924 | | > select add #33 |
| 16925 | | |
| 16926 | | 19762 atoms, 20168 bonds, 2435 residues, 5 models selected |
| 16927 | | |
| 16928 | | > select subtract #33 |
| 16929 | | |
| 16930 | | 1 model selected |
| 16931 | | |
| 16932 | | > close #30 |
| 16933 | | |
| 16934 | | > close #29 |
| 16935 | | |
| 16936 | | > select add #28.2 |
| 16937 | | |
| 16938 | | 4995 atoms, 5088 bonds, 612 residues, 1 model selected |
| 16939 | | |
| 16940 | | > select subtract #28.2 |
| 16941 | | |
| 16942 | | 1 model selected |
| 16943 | | |
| 16944 | | > show #!28 models |
| 16945 | | |
| 16946 | | > hide #32.3 models |
| 16947 | | |
| 16948 | | > show #32.3 models |
| 16949 | | |
| 16950 | | > hide #32.1 models |
| 16951 | | |
| 16952 | | > show #32.1 models |
| 16953 | | |
| 16954 | | > color #32.1 #ca4949ff |
| 16955 | | |
| 16956 | | > color #33.1 #ca4949ff |
| 16957 | | |
| 16958 | | > hide #!28.4 models |
| 16959 | | |
| 16960 | | > show #!28.4 models |
| 16961 | | |
| 16962 | | > hide #32.4 models |
| 16963 | | |
| 16964 | | > show #32.4 models |
| 16965 | | |
| 16966 | | > hide #32.3 models |
| 16967 | | |
| 16968 | | > show #32.3 models |
| 16969 | | |
| 16970 | | > color #32.3 #8c3092ff |
| 16971 | | |
| 16972 | | > hide #33.4 models |
| 16973 | | |
| 16974 | | > show #33.4 models |
| 16975 | | |
| 16976 | | > hide #!33.2 models |
| 16977 | | |
| 16978 | | > show #!33.2 models |
| 16979 | | |
| 16980 | | > color #33.2 magenta |
| 16981 | | |
| 16982 | | > show #!1 models |
| 16983 | | |
| 16984 | | > hide #!1 models |
| 16985 | | |
| 16986 | | > hide #32.4 models |
| 16987 | | |
| 16988 | | > show #32.4 models |
| 16989 | | |
| 16990 | | > color #32.4 #ca4949ff |
| 16991 | | |
| 16992 | | > color #33.4 #ca4949ff |
| 16993 | | |
| 16994 | | > hide #!28 models |
| 16995 | | |
| 16996 | | > hide #!32 models |
| 16997 | | |
| 16998 | | > hide #!33 models |
| 16999 | | |
| 17000 | | > ui tool show "Segment Map" |
| 17001 | | |
| 17002 | | Segmenting PflA-2.1A-230911.mrc, density threshold 0.184695 |
| 17003 | | Showing 295 region surfaces |
| 17004 | | 3349 watershed regions, grouped to 295 regions |
| 17005 | | Showing PflA-2.1A-230911.seg - 295 regions, 295 surfaces |
| 17006 | | |
| 17007 | | > select add #29.3 |
| 17008 | | |
| 17009 | | 1 model selected |
| 17010 | | |
| 17011 | | > select add #29.256 |
| 17012 | | |
| 17013 | | 2 models selected |
| 17014 | | |
| 17015 | | > select add #29.4 |
| 17016 | | |
| 17017 | | 3 models selected |
| 17018 | | |
| 17019 | | > select add #29.145 |
| 17020 | | |
| 17021 | | 4 models selected |
| 17022 | | |
| 17023 | | > select add #29.16 |
| 17024 | | |
| 17025 | | 5 models selected |
| 17026 | | |
| 17027 | | > select add #29.250 |
| 17028 | | |
| 17029 | | 6 models selected |
| 17030 | | Drag select of 4700, 489 of 20620 triangles, 4887, 3576 of 19436 triangles, |
| 17031 | | 4964, 26 of 13104 triangles, 4763, 4895, 4696, 550 of 9412 triangles, 4866 |
| 17032 | | Drag select of 4899, 615 of 27220 triangles, 4902, 5446 of 23188 triangles, |
| 17033 | | 4949, 15956 of 19796 triangles, 4692, 3867 of 20372 triangles, 4932, 13845 of |
| 17034 | | 19788 triangles, 4915, 16250 of 18084 triangles, 4897, 751 of 19224 triangles, |
| 17035 | | 4704, 8950 of 17972 triangles, 4922, 44 of 17548 triangles, 4886, 3440 of |
| 17036 | | 16072 triangles, 4943, 14122 of 15236 triangles, 4708, 639 of 14432 triangles, |
| 17037 | | 4909, 12696 of 14460 triangles, 4691, 8890 of 14140 triangles, 4918, 10905 of |
| 17038 | | 15304 triangles, 4675, 5509 of 12864 triangles, 4850, 7532 of 14224 triangles, |
| 17039 | | 4910, 3199 of 13064 triangles, 4952, 3122 of 13532 triangles, 4756, 9030 of |
| 17040 | | 12092 triangles, 4959, 2165 of 11244 triangles, 4916, 1297 of 12440 triangles, |
| 17041 | | 4742, 2132 of 11168 triangles, 4721, 609 of 11256 triangles, 4728, 277 of |
| 17042 | | 11200 triangles, 4926, 5930 of 12096 triangles, 4942, 2162 of 9944 triangles, |
| 17043 | | 4904, 6909 of 9736 triangles, 4913, 4703, 2359 of 10328 triangles, 4712, 3174 |
| 17044 | | of 9008 triangles, 4805, 3653 of 9596 triangles, 4758, 7801 of 7876 triangles, |
| 17045 | | 4762, 7903 of 8936 triangles, 4294, 6972 of 7764 triangles, 4282, 1463 of 6712 |
| 17046 | | triangles, 4321, 4605, 6426 of 6700 triangles, 4573, 5123 of 6248 triangles, |
| 17047 | | 4342, 2525 of 4648 triangles, 4340, 1758 of 4632 triangles |
| 17048 | | Drag select of 4668, 14222 of 14912 triangles, 4896, 2950 of 15160 triangles, |
| 17049 | | 4663, 12051 of 14720 triangles, 4761, 3120 of 15236 triangles, 4891, 971 of |
| 17050 | | 14104 triangles, 4888, 6670 of 11360 triangles, 4726, 9406 of 10748 triangles, |
| 17051 | | 4713, 3094 of 10880 triangles, 4380, 1387 of 4444 triangles, 3860, 866 of 4348 |
| 17052 | | triangles |
| 17053 | | |
| 17054 | | > select add #29.239 |
| 17055 | | |
| 17056 | | 65 models selected |
| 17057 | | Drag select of 4689, 1369 of 19220 triangles, 4889, 7346 of 19404 triangles, |
| 17058 | | 4738, 8412 of 18596 triangles, 4885, 6608 of 18508 triangles, 4954, 3180 of |
| 17059 | | 16240 triangles, 4938, 10669 of 19236 triangles, 4951, 9496 of 18276 |
| 17060 | | triangles, 4914, 8181 of 16520 triangles, 4735, 3535 of 16136 triangles, 4934, |
| 17061 | | 5144 of 15096 triangles, 4944, 7567 of 15396 triangles, 4940, 10304 of 16352 |
| 17062 | | triangles, 4900, 9260 of 14060 triangles, 4892, 11398 of 13456 triangles, |
| 17063 | | 4857, 4266 of 12868 triangles, 4923, 10595 of 13012 triangles, 4946, 7135 of |
| 17064 | | 12704 triangles, 4905, 4951 of 12716 triangles, 4734, 6050 of 13180 triangles, |
| 17065 | | 4719, 7639 of 13024 triangles, 4903, 4366 of 12188 triangles, 4694, 4063 of |
| 17066 | | 12536 triangles, 4784, 4118 of 12580 triangles, 4746, 4022 of 12820 triangles, |
| 17067 | | 4671, 360 of 11748 triangles, 4676, 7112 of 10476 triangles, 4941, 3032 of |
| 17068 | | 10760 triangles, 4269, 5558 of 9676 triangles, 4890, 11050 of 11756 triangles, |
| 17069 | | 4782, 6972 of 9776 triangles, 4879, 2916 of 8508 triangles, 4698, 2987 of 9220 |
| 17070 | | triangles, 4877, 6702 of 9200 triangles, 4724, 6962 of 8944 triangles, 4091, |
| 17071 | | 1619 of 8108 triangles, 4774, 2105 of 8116 triangles, 4711, 7128 of 7880 |
| 17072 | | triangles, 4800, 5186 of 8140 triangles, 4715, 1608 of 6440 triangles, 4874, |
| 17073 | | 5216 of 7408 triangles, 4853, 5165 of 7556 triangles, 4741, 3827 of 7216 |
| 17074 | | triangles |
| 17075 | | Drag select of 4927, 13477 of 15704 triangles, 4878, 9453 of 9600 triangles, |
| 17076 | | 4309, 7829 of 8912 triangles, 4534, 6567 of 6700 triangles, 4670, 5829 of 6004 |
| 17077 | | triangles |
| 17078 | | Drag select of 4750, 6730 of 11416 triangles, 4906, 12393 of 12516 triangles, |
| 17079 | | 4930, 4834, 7953 of 10404 triangles, 4865, 4183 of 10016 triangles, 4815, |
| 17080 | | 4928, 4577, 8835 of 9196 triangles, 4172, 4688, 4804, 4965, 8439 of 8488 |
| 17081 | | triangles, 4795, 3745 of 8332 triangles, 4214, 2221 of 7504 triangles, 4788, |
| 17082 | | 4880, 4789, 3398, 2931 of 5904 triangles, 4359, 4420, 5129 of 5492 triangles, |
| 17083 | | 3375, 4992 of 5048 triangles, 3388, 4562, 59 of 4036 triangles, 160, 895 of |
| 17084 | | 2876 triangles |
| 17085 | | |
| 17086 | | > select add #29.179 |
| 17087 | | |
| 17088 | | 137 models selected |
| 17089 | | |
| 17090 | | > select add #29.224 |
| 17091 | | |
| 17092 | | 138 models selected |
| 17093 | | |
| 17094 | | > select add #29.213 |
| 17095 | | |
| 17096 | | 139 models selected |
| 17097 | | |
| 17098 | | > show #!33 models |
| 17099 | | |
| 17100 | | > hide #!33 models |
| 17101 | | |
| 17102 | | > select add #33 |
| 17103 | | |
| 17104 | | 19762 atoms, 20168 bonds, 2435 residues, 144 models selected |
| 17105 | | |
| 17106 | | > select add #32 |
| 17107 | | |
| 17108 | | 39524 atoms, 40336 bonds, 4870 residues, 150 models selected |
| 17109 | | |
| 17110 | | > show #!32 models |
| 17111 | | |
| 17112 | | > show #!33 models |
| 17113 | | |
| 17114 | | > select add #29 |
| 17115 | | |
| 17116 | | 39524 atoms, 40336 bonds, 4870 residues, 307 models selected |
| 17117 | | |
| 17118 | | > select subtract #29 |
| 17119 | | |
| 17120 | | 39524 atoms, 40336 bonds, 4870 residues, 11 models selected |
| 17121 | | |
| 17122 | | > hide sel & #32.1,3-4#33.1,4#!33.2 cartoons |
| 17123 | | |
| 17124 | | > show sel & #32.1,3-4#33.1,4#!33.2 surfaces |
| 17125 | | |
| 17126 | | > select subtract #32 |
| 17127 | | |
| 17128 | | 19762 atoms, 20168 bonds, 2435 residues, 11 models selected |
| 17129 | | |
| 17130 | | > select subtract #33 |
| 17131 | | |
| 17132 | | 3 models selected |
| 17133 | | |
| 17134 | | > hide #!32 models |
| 17135 | | |
| 17136 | | > show #!32 models |
| 17137 | | |
| 17138 | | > hide #!33 models |
| 17139 | | |
| 17140 | | > hide #!32 models |
| 17141 | | |
| 17142 | | > select clear |
| 17143 | | |
| 17144 | | Drag select of 4911, 4939, 4937, 4947, 4901, 4933, 4812, 4908, 4864, 4907, |
| 17145 | | 4779, 4935, 4953, 4958, 13741 of 14800 triangles, 4966, 4948, 4936, 4217, |
| 17146 | | 4917, 4793, 4748, 4919, 4894, 4845, 4772, 4669, 4679, 4855, 4818, 4823, 4539, |
| 17147 | | 4781, 4957, 4797, 4119, 4072, 4174, 4524, 4452, 4611, 4754, 4570, 4962, 4559, |
| 17148 | | 4961, 4912, 4209, 4553, 4955, 4727, 4771, 4821, 4808, 4137, 4893, 4876, 4664, |
| 17149 | | 4262, 3475, 4783, 4235, 4929, 4852, 4199, 4707, 4505, 4861, 4920, 4817, 4830, |
| 17150 | | 4921, 4405, 4856, 4162, 4950, 4460, 4595, 3405, 4149, 4747, 4567, 1073, 4422, |
| 17151 | | 4446, 4841, 4931, 4835, 4963, 4682, 4787, 4924, 4148, 3917, 8386 of 8404 |
| 17152 | | triangles, 4413, 4945, 4110, 4538, 4208, 4956, 4336, 3440, 4868, 4138, 4454, |
| 17153 | | 4838, 4725, 4705, 4858, 4833, 4813, 855, 4960, 4204, 4544, 3450, 4461, 4171, |
| 17154 | | 4839, 4099, 4677, 4201, 4822, 3446, 4547, 4898, 4502, 3410, 4518, 4860, 4200, |
| 17155 | | 4731, 3411, 3453, 4872, 4732, 4831, 4825, 4525, 4477, 4632, 4437, 4847, 4596, |
| 17156 | | 4205, 4187, 4491, 4807, 4770, 4472, 712, 4001, 3470, 3517, 858, 696, 4470, |
| 17157 | | 4656, 4315, 1461, 26 3xOnly-PflAB.mrc |
| 17158 | | Grouped 159 regions |
| 17159 | | Showing 137 region surfaces |
| 17160 | | |
| 17161 | | > select #29.1 |
| 17162 | | |
| 17163 | | 1 model selected |
| 17164 | | Opened PflA-2.1A-230911_imasked as #30, grid size 240,240,240, pixel 2.1, |
| 17165 | | shown at step 1, values float32 |
| 17166 | | Segmenting PflA-2.1A-230911_imasked, density threshold 0.184695 |
| 17167 | | Showing 159 region surfaces |
| 17168 | | 1246 watershed regions, grouped to 159 regions |
| 17169 | | Showing PflA-2.seg - 159 regions, 159 surfaces |
| 17170 | | |
| 17171 | | > select add #29.7 |
| 17172 | | |
| 17173 | | 1 model selected |
| 17174 | | |
| 17175 | | > select add #29.81 |
| 17176 | | |
| 17177 | | 2 models selected |
| 17178 | | |
| 17179 | | > select add #29.134 |
| 17180 | | |
| 17181 | | 3 models selected |
| 17182 | | |
| 17183 | | > select add #29.60 |
| 17184 | | |
| 17185 | | 4 models selected |
| 17186 | | |
| 17187 | | > select add #29.106 |
| 17188 | | |
| 17189 | | 5 models selected |
| 17190 | | |
| 17191 | | > select add #29.16 |
| 17192 | | |
| 17193 | | 6 models selected |
| 17194 | | |
| 17195 | | > select add #29.13 |
| 17196 | | |
| 17197 | | 7 models selected |
| 17198 | | |
| 17199 | | > select add #29.31 |
| 17200 | | |
| 17201 | | 8 models selected |
| 17202 | | |
| 17203 | | > select add #29.84 |
| 17204 | | |
| 17205 | | 9 models selected |
| 17206 | | |
| 17207 | | > select add #29.39 |
| 17208 | | |
| 17209 | | 10 models selected |
| 17210 | | |
| 17211 | | > select add #29.40 |
| 17212 | | |
| 17213 | | 11 models selected |
| 17214 | | |
| 17215 | | > select add #29.28 |
| 17216 | | |
| 17217 | | 12 models selected |
| 17218 | | |
| 17219 | | > select add #29.97 |
| 17220 | | |
| 17221 | | 13 models selected |
| 17222 | | |
| 17223 | | > select add #29.72 |
| 17224 | | |
| 17225 | | 14 models selected |
| 17226 | | |
| 17227 | | > select add #29.51 |
| 17228 | | |
| 17229 | | 15 models selected |
| 17230 | | |
| 17231 | | > select add #29.33 |
| 17232 | | |
| 17233 | | 16 models selected |
| 17234 | | |
| 17235 | | > select add #29.56 |
| 17236 | | |
| 17237 | | 17 models selected |
| 17238 | | |
| 17239 | | > select add #29.93 |
| 17240 | | |
| 17241 | | 18 models selected |
| 17242 | | |
| 17243 | | > select add #29.32 |
| 17244 | | |
| 17245 | | 19 models selected |
| 17246 | | |
| 17247 | | > select add #29.38 |
| 17248 | | |
| 17249 | | 20 models selected |
| 17250 | | |
| 17251 | | > select add #29.30 |
| 17252 | | |
| 17253 | | 21 models selected |
| 17254 | | Grouped 21 regions |
| 17255 | | |
| 17256 | | > select add #29.15 |
| 17257 | | |
| 17258 | | 2 models selected |
| 17259 | | |
| 17260 | | > select add #29.133 |
| 17261 | | |
| 17262 | | 3 models selected |
| 17263 | | |
| 17264 | | > select add #29.141 |
| 17265 | | |
| 17266 | | 4 models selected |
| 17267 | | |
| 17268 | | > select add #29.54 |
| 17269 | | |
| 17270 | | 5 models selected |
| 17271 | | |
| 17272 | | > select add #29.109 |
| 17273 | | |
| 17274 | | 6 models selected |
| 17275 | | |
| 17276 | | > select add #29.149 |
| 17277 | | |
| 17278 | | 7 models selected |
| 17279 | | |
| 17280 | | > select add #29.26 |
| 17281 | | |
| 17282 | | 8 models selected |
| 17283 | | |
| 17284 | | > select add #29.44 |
| 17285 | | |
| 17286 | | 9 models selected |
| 17287 | | |
| 17288 | | > select add #29.34 |
| 17289 | | |
| 17290 | | 10 models selected |
| 17291 | | |
| 17292 | | > select add #29.59 |
| 17293 | | |
| 17294 | | 11 models selected |
| 17295 | | |
| 17296 | | > select add #29.14 |
| 17297 | | |
| 17298 | | 12 models selected |
| 17299 | | |
| 17300 | | > select add #29.78 |
| 17301 | | |
| 17302 | | 13 models selected |
| 17303 | | |
| 17304 | | > select add #29.53 |
| 17305 | | |
| 17306 | | 14 models selected |
| 17307 | | |
| 17308 | | > select add #29.36 |
| 17309 | | |
| 17310 | | 15 models selected |
| 17311 | | |
| 17312 | | > select add #29.11 |
| 17313 | | |
| 17314 | | 16 models selected |
| 17315 | | |
| 17316 | | > select add #29.37 |
| 17317 | | |
| 17318 | | 17 models selected |
| 17319 | | |
| 17320 | | > select add #29.24 |
| 17321 | | |
| 17322 | | 18 models selected |
| 17323 | | |
| 17324 | | > select add #29.120 |
| 17325 | | |
| 17326 | | 19 models selected |
| 17327 | | |
| 17328 | | > select add #29.90 |
| 17329 | | |
| 17330 | | 20 models selected |
| 17331 | | |
| 17332 | | > select add #29.94 |
| 17333 | | |
| 17334 | | 21 models selected |
| 17335 | | Grouped 21 regions |
| | 3947 | [deleted to fit within ticket limits] |
![[ChimeraX Issue Tracking System]](/trac/ChimeraX/chrome/site/ChimeraX-icon.svg){kind=icon}
