Changes between Initial Version and Version 1 of Ticket #15854


Ignore:
Timestamp:
Aug 30, 2024, 11:39:46 AM (15 months ago)
Author:
Eric Pettersen
Comment:

Reported by Nicholas Ferraro

Legend:

Unmodified
Added
Removed
Modified

  • Ticket #15854

    • Property Cc Eric Pettersen added
    • Property Component Unassigned → Window Toolkit
    • Property Owner set to Tom Goddard
    • Property Platform → all
    • Property Project → ChimeraX
    • Property Status new → assigned
    • Property Summary ChimeraX bug report submission → Crash on Mac waking from sleep

  • Ticket #15854 – Description

    initial v1  
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     70[deleted to fit within ticket limits]
    215971],
    216072  "sharedCache" : {
    … …  
    39491861QTBUG which explains how to reproduce. 
    39501862
    3951 > save /Users/nicholasferraro/Replicase/AMP-PnP-ATP/AMP-PnP-
    3952 > ATP_Models_Phenix/Rep_F-chain.pdb models #2 relModel #1
    3953 
    3954 > close #1
    3955 
    3956 > show #!3 models
    3957 
    3958 > hide #!3 models
    3959 
    3960 > close #4
    3961 
    3962 > close #3
    3963 
    3964 > hide #2 models
    3965 
    3966 > open /Users/nicholasferraro/Replicase/AMP-PnP-ATP/AMP-PnP-
    3967 > ATP_Models_Phenix/J909_AMP-PnP-ATP_F-chain.pdb
    3968 
    3969 Chain information for J909_AMP-PnP-ATP_F-chain.pdb #1 
    3970 --- 
    3971 Chain | Description 
    3972 A B C E | No description available 
    3973 D | No description available 
    3974 F | No description available 
    3975 G | No description available 
    3976  
    3977 
    3978 > view matrix models
    3979 > #2,0.96313,-0.26902,-0.0032043,25.807,0.24991,0.899,-0.35965,16.344,0.099633,0.34559,0.93308,-26.313
    3980 
    3981 > select protein
    3982 
    3983 19841 atoms, 20146 bonds, 1253 residues, 2 models selected 
    3984 
    3985 > select clear
    3986 
    3987 > style #!1 ball
    3988 
    3989 Changed 17940 atom styles 
    3990 
    3991 > show #!1 cartoons
    3992 
    3993 > hide #!1 atoms
    3994 
    3995 > select ligand
    3996 
    3997 396 atoms, 417 bonds, 11 residues, 1 model selected 
    3998 
    3999 > show sel atoms
    4000 
    4001 > select clear
    4002 
    4003 > select #1/A:402@N7
    4004 
    4005 1 atom, 1 residue, 1 model selected 
    4006 
    4007 > select add #1/A:402@C5
    4008 
    4009 2 atoms, 1 residue, 1 model selected 
    4010 
    4011 > select add #1/A:402@C2'
    4012 
    4013 3 atoms, 1 residue, 1 model selected 
    4014 
    4015 > select add #1/A:402@C4'
    4016 
    4017 4 atoms, 1 residue, 1 model selected 
    4018 
    4019 > select add #1/A:402@O3A
    4020 
    4021 5 atoms, 1 bond, 1 residue, 1 model selected 
    4022 
    4023 > select add #1/A:402@PB
    4024 
    4025 6 atoms, 1 bond, 1 residue, 1 model selected 
    4026 
    4027 > select add #1/A:402@O2B
    4028 
    4029 7 atoms, 1 bond, 1 residue, 1 model selected 
    4030 
    4031 The cached device pixel ratio value was stale on window expose. Please file a
    4032 QTBUG which explains how to reproduce. 
    4033 
    4034 > select add #1/A:402@N3B
    4035 
    4036 8 atoms, 2 bonds, 1 residue, 1 model selected 
    4037 
    4038 > select add #1/A:402@O3G
    4039 
    4040 9 atoms, 2 bonds, 1 residue, 1 model selected 
    4041 
    4042 > select add #1/A:402@PG
    4043 
    4044 10 atoms, 2 bonds, 1 residue, 1 model selected 
    4045 
    4046 > select add #1/A:402@O2G
    4047 
    4048 11 atoms, 2 bonds, 1 residue, 1 model selected 
    4049 
    4050 > select subtract #1/A:402@N3B
    4051 
    4052 10 atoms, 2 bonds, 1 residue, 1 model selected 
    4053 
    4054 The cached device pixel ratio value was stale on window expose. Please file a
    4055 QTBUG which explains how to reproduce. 
    4056 
    4057 > delete bonds sel
    4058 
    4059 > select subtract #1/A:402@O2G
    4060 
    4061 9 atoms, 1 residue, 1 model selected 
    4062 
    4063 The cached device pixel ratio value was stale on window expose. Please file a
    4064 QTBUG which explains how to reproduce. 
    4065 
    4066 > delete atoms sel
    4067 
    4068 > select add #1/A:402@N6
    4069 
    4070 1 atom, 1 residue, 1 model selected 
    4071 
    4072 > select add #1/A:402@C6
    4073 
    4074 2 atoms, 1 residue, 1 model selected 
    4075 
    4076 > select add #1/A:402@C2
    4077 
    4078 3 atoms, 1 bond, 1 residue, 1 model selected 
    4079 
    4080 > select add #1/A:402@C4
    4081 
    4082 4 atoms, 2 bonds, 1 residue, 1 model selected 
    4083 
    4084 > select add #1/A:402@C1'
    4085 
    4086 5 atoms, 3 bonds, 1 residue, 1 model selected 
    4087 
    4088 > select add #1/A:402@O4'
    4089 
    4090 6 atoms, 3 bonds, 1 residue, 1 model selected 
    4091 
    4092 > select add #1/A:402@C8
    4093 
    4094 7 atoms, 3 bonds, 1 residue, 1 model selected 
    4095 
    4096 > select add #1/A:402@C3'
    4097 
    4098 8 atoms, 3 bonds, 1 residue, 1 model selected 
    4099 
    4100 > select add #1/A:402@O2'
    4101 
    4102 9 atoms, 4 bonds, 1 residue, 1 model selected 
    4103 
    4104 > select add #1/A:402@O2A
    4105 
    4106 10 atoms, 4 bonds, 1 residue, 1 model selected 
    4107 
    4108 > select add #1/A:402@C5'
    4109 
    4110 11 atoms, 4 bonds, 1 residue, 1 model selected 
    4111 
    4112 > select subtract #1/A:402@C5'
    4113 
    4114 10 atoms, 4 bonds, 1 residue, 1 model selected 
    4115 
    4116 > select add #1/A:402@O5'
    4117 
    4118 11 atoms, 4 bonds, 1 residue, 1 model selected 
    4119 
    4120 > select add #1/A:402@O1A
    4121 
    4122 12 atoms, 4 bonds, 1 residue, 1 model selected 
    4123 
    4124 > select add #1/A:402@PA
    4125 
    4126 13 atoms, 4 bonds, 1 residue, 1 model selected 
    4127 
    4128 > select add #1/A:402@O1B
    4129 
    4130 14 atoms, 4 bonds, 1 residue, 1 model selected 
    4131 
    4132 > select add #1/A:402@N3B
    4133 
    4134 15 atoms, 4 bonds, 1 residue, 1 model selected 
    4135 
    4136 > select add #1/A:402@O1G
    4137 
    4138 16 atoms, 4 bonds, 1 residue, 1 model selected 
    4139 
    4140 > select add #1/A:402@O2G
    4141 
    4142 17 atoms, 4 bonds, 1 residue, 1 model selected 
    4143 
    4144 The cached device pixel ratio value was stale on window expose. Please file a
    4145 QTBUG which explains how to reproduce. 
    4146 
    4147 > delete atoms sel
    4148 
    4149 > select #1/A:402@C5'
    4150 
    4151 1 atom, 1 residue, 1 model selected 
    4152 
    4153 > select #1/A:402@N9
    4154 
    4155 1 atom, 1 residue, 1 model selected 
    4156 
    4157 > select #1/A:402@O3'
    4158 
    4159 1 atom, 1 residue, 1 model selected 
    4160 
    4161 > select #1/A:402@N3
    4162 
    4163 1 atom, 1 residue, 1 model selected 
    4164 
    4165 > select #1/A:402@N1
    4166 
    4167 1 atom, 1 residue, 1 model selected 
    4168 
    4169 > select add #1/A:402@N9
    4170 
    4171 2 atoms, 1 residue, 1 model selected 
    4172 
    4173 > select add #1/A:402@N3
    4174 
    4175 3 atoms, 1 residue, 1 model selected 
    4176 
    4177 > select add #1/A:402@O3'
    4178 
    4179 4 atoms, 1 residue, 1 model selected 
    4180 
    4181 > select add #1/A:402@C5'
    4182 
    4183 5 atoms, 1 residue, 1 model selected 
    4184 
    4185 The cached device pixel ratio value was stale on window expose. Please file a
    4186 QTBUG which explains how to reproduce. 
    4187 
    4188 > delete atoms sel
    4189 
    4190 The cached device pixel ratio value was stale on window expose. Please file a
    4191 QTBUG which explains how to reproduce. 
    4192 
    4193 > save /Users/nicholasferraro/Replicase/AMP-PnP-ATP/AMP-PnP-
    4194 > ATP_Models_Phenix/J909_AMP-PnP-ATP_F-chain.pdb models #1 relModel #1
    4195 
    4196 > close #1
    4197 
    4198 > open /Users/nicholasferraro/Replicase/AMP-PnP-ATP/AMP-PnP-
    4199 > ATP_Models_Phenix/J921_AMP-PnP-ATP_F-chain.pdb
    4200 
    4201 Chain information for J921_AMP-PnP-ATP_F-chain.pdb #1 
    4202 --- 
    4203 Chain | Description 
    4204 A B C E | No description available 
    4205 D | No description available 
    4206 F | No description available 
    4207 G | No description available 
    4208  
    4209 
    4210 > style #!1 ball
    4211 
    4212 Changed 15652 atom styles 
    4213 
    4214 > show #!1 cartoons
    4215 
    4216 > hide #!1 atoms
    4217 
    4218 > select ligand
    4219 
    4220 409 atoms, 430 bonds, 11 residues, 1 model selected 
    4221 
    4222 > show sel atoms
    4223 
    4224 > select clear
    4225 
    4226 > show #2 models
    4227 
    4228 > open /Users/nicholasferraro/Replicase/AMP-PnP-
    4229 > ATP/J921/cryosparc_P5_crypsparc_P5_J921_005_volume_map_sharp_flip.mrc
    4230 
    4231 Opened cryosparc_P5_crypsparc_P5_J921_005_volume_map_sharp_flip.mrc as #3,
    4232 grid size 300,300,300, pixel 0.844, shown at level 0.105, step 2, values
    4233 float32 
    4234 
    4235 > surface dust #3 size 8.44
    4236 
    4237 > volume gaussian #3 sDev 1.99
    4238 
    4239 Opened cryosparc_P5_crypsparc_P5_J921_005_volume_map_sharp_flip.mrc gaussian
    4240 as #4, grid size 300,300,300, pixel 0.844, shown at step 1, values float32 
    4241 
    4242 > transparency #4.1 50
    4243 
    4244 > volume #4 level 0.0982
    4245 
    4246 > volume gaussian #3 sDev 1.32 modelId #4
    4247 
    4248 Opened cryosparc_P5_crypsparc_P5_J921_005_volume_map_sharp_flip.mrc gaussian
    4249 as #4, grid size 300,300,300, pixel 0.844, shown at step 1, values float32 
    4250 
    4251 > select add #2
    4252 
    4253 2301 atoms, 2341 bonds, 144 residues, 1 model selected 
    4254 
    4255 > fitmap #2 inMap #4
    4256 
    4257 Fit molecule Rep_F-chain.pdb (#2) to map
    4258 cryosparc_P5_crypsparc_P5_J921_005_volume_map_sharp_flip.mrc gaussian (#4)
    4259 using 2301 atoms 
    4260 average map value = 0.1807, steps = 132 
    4261 shifted from previous position = 5.76 
    4262 rotated from previous position = 31.2 degrees 
    4263 atoms outside contour = 565, contour level = 0.11632 
    4264  
    4265 Position of Rep_F-chain.pdb (#2) relative to
    4266 cryosparc_P5_crypsparc_P5_J921_005_volume_map_sharp_flip.mrc gaussian (#4)
    4267 coordinates: 
    4268 Matrix rotation and translation 
    4269 0.99393118 -0.07549020 0.08001275 -3.77635388 
    4270 0.06509498 0.98996930 0.12539308 -11.72745979 
    4271 -0.08867611 -0.11942366 0.98887539 50.60538444 
    4272 Axis -0.74441838 0.51293505 0.42747972 
    4273 Axis point -0.00000000 339.51702968 196.06899964 
    4274 Rotation angle (degrees) 9.46440891 
    4275 Shift along axis 18.42853776 
    4276  
    4277 
    4278 > select clear
    4279 
    4280 > hide #!4 models
    4281 
    4282 > select #1/F:157
    4283 
    4284 11 atoms, 10 bonds, 1 residue, 1 model selected 
    4285 
    4286 > select #2/F:158
    4287 
    4288 7 atoms, 6 bonds, 1 residue, 1 model selected 
    4289 
    4290 > select add #1/F:157
    4291 
    4292 18 atoms, 16 bonds, 2 residues, 2 models selected 
    4293 
    4294 > ui tool show "Build Structure"
    4295 
    4296 The cached device pixel ratio value was stale on window expose. Please file a
    4297 QTBUG which explains how to reproduce. 
    4298 
    4299 > build join peptide sel length 1.33 omega 180 phi -120 move small
    4300 
    4301 > undo
    4302 
    4303 The cached device pixel ratio value was stale on window expose. Please file a
    4304 QTBUG which explains how to reproduce. 
    4305 
    4306 Undo failed, probably because structures have been modified. 
    4307 
    4308 > select subtract /F:157
    4309 
    4310 Nothing selected 
    4311 
    4312 The cached device pixel ratio value was stale on window expose. Please file a
    4313 QTBUG which explains how to reproduce. 
    4314 
    4315 > select /F:157
    4316 
    4317 11 atoms, 10 bonds, 1 residue, 1 model selected 
    4318 
    4319 The cached device pixel ratio value was stale on window expose. Please file a
    4320 QTBUG which explains how to reproduce. 
    4321 
    4322 > select clear
    4323 
    4324 > close #1
    4325 
    4326 > open /Users/nicholasferraro/Replicase/AMP-PnP-ATP/AMP-PnP-
    4327 > ATP_Models_Phenix/Rep_F-chain.pdb /Users/nicholasferraro/Replicase/AMP-PnP-
    4328 > ATP/AMP-PnP-ATP_Models_Phenix/J921_AMP-PnP-ATP_F-chain.pdb
    4329 
    4330 Rep_F-chain.pdb title: 
    4331 Cryo-em structure of PCV2 replicase bound to ssDNA [more info...] 
    4332  
    4333 Chain information for Rep_F-chain.pdb #1 
    4334 --- 
    4335 Chain | Description | UniProt 
    4336 F | atp-dependent helicase rep | Q6TC59_PCV2 1-314 
    4337  
    4338 Chain information for J921_AMP-PnP-ATP_F-chain.pdb #2 
    4339 --- 
    4340 Chain | Description 
    4341 A B C E | No description available 
    4342 D | No description available 
    4343 F | No description available 
    4344 G | No description available 
    4345  
    4346 
    4347 > show #!4 models
    4348 
    4349 > select add #1
    4350 
    4351 2301 atoms, 2341 bonds, 144 residues, 1 model selected 
    4352 
    4353 > fitmap #1 inMap #4
    4354 
    4355 Fit molecule Rep_F-chain.pdb (#1) to map
    4356 cryosparc_P5_crypsparc_P5_J921_005_volume_map_sharp_flip.mrc gaussian (#4)
    4357 using 2301 atoms 
    4358 average map value = 0.1807, steps = 132 
    4359 shifted from previous position = 5.76 
    4360 rotated from previous position = 31.2 degrees 
    4361 atoms outside contour = 565, contour level = 0.11632 
    4362  
    4363 Position of Rep_F-chain.pdb (#1) relative to
    4364 cryosparc_P5_crypsparc_P5_J921_005_volume_map_sharp_flip.mrc gaussian (#4)
    4365 coordinates: 
    4366 Matrix rotation and translation 
    4367 0.97734944 0.15170661 0.14755737 -27.58756758 
    4368 -0.20396675 0.86117966 0.46558259 -8.29435040 
    4369 -0.05644144 -0.48513368 0.87261657 82.94464458 
    4370 Axis -0.91824271 0.19703083 -0.34352465 
    4371 Axis point 0.00000000 151.56591880 60.97711541 
    4372 Rotation angle (degrees) 31.17692320 
    4373 Shift along axis -4.79568996 
    4374  
    4375 
    4376 The cached device pixel ratio value was stale on window expose. Please file a
    4377 QTBUG which explains how to reproduce. 
    4378 
    4379 > save /Users/nicholasferraro/Replicase/AMP-PnP-ATP/AMP-PnP-
    4380 > ATP_Models_Phenix/Rep_F-chain.pdb models #1 relModel #2
    4381 
    4382 > close #2
    4383 
    4384 > hide #1 models
    4385 
    4386 > close #4
    4387 
    4388 > close #3
    4389 
    4390 > open /Users/nicholasferraro/Replicase/AMP-PnP-ATP/AMP-PnP-
    4391 > ATP_Models_Phenix/J921_AMP-PnP-ATP_F-chain.pdb
    4392 
    4393 Chain information for J921_AMP-PnP-ATP_F-chain.pdb #2 
    4394 --- 
    4395 Chain | Description 
    4396 A B C E | No description available 
    4397 D | No description available 
    4398 F | No description available 
    4399 G | No description available 
    4400  
    4401 
    4402 > close #2
    4403 
    4404 > open /Users/nicholasferraro/Replicase/AMP-PnP-ATP/AMP-PnP-
    4405 > ATP_Models_Phenix/J922_AMP-PnP-ATP_F-chain.pdb
    4406 
    4407 Chain information for J922_AMP-PnP-ATP_F-chain.pdb #2 
    4408 --- 
    4409 Chain | Description 
    4410 A B C E | No description available 
    4411 D | No description available 
    4412 F | No description available 
    4413 G | No description available 
    4414  
    4415 
    4416 > color #!2 byhetero
    4417 
    4418 > style #!2 ball
    4419 
    4420 Changed 15653 atom styles 
    4421 
    4422 > undo
    4423 
    4424 > style #!2 ball
    4425 
    4426 Changed 15653 atom styles 
    4427 
    4428 > show #!2 cartoons
    4429 
    4430 > hide #!2 atoms
    4431 
    4432 > select ligand
    4433 
    4434 409 atoms, 430 bonds, 11 residues, 1 model selected 
    4435 
    4436 > show sel atoms
    4437 
    4438 > select clear
    4439 
    4440 > show #1 models
    4441 
    4442 > open /Users/nicholasferraro/Replicase/AMP-PnP-
    4443 > ATP/J922/cryosparc_P5_cryosparc_P5_J922_004_volume_map_sharp.mrc
    4444 
    4445 Opened cryosparc_P5_cryosparc_P5_J922_004_volume_map_sharp.mrc as #3, grid
    4446 size 300,300,300, pixel 0.844, shown at level 0.101, step 2, values float32 
    4447 
    4448 > surface dust #3 size 8.44
    4449 
    4450 > volume gaussian #3 sDev 1.32
    4451 
    4452 Opened cryosparc_P5_cryosparc_P5_J922_004_volume_map_sharp.mrc gaussian as #4,
    4453 grid size 300,300,300, pixel 0.844, shown at step 1, values float32 
    4454 
    4455 > volume gaussian #3 sDev 1.06 modelId #4
    4456 
    4457 Opened cryosparc_P5_cryosparc_P5_J922_004_volume_map_sharp.mrc gaussian as #4,
    4458 grid size 300,300,300, pixel 0.844, shown at step 1, values float32 
    4459 
    4460 > volume gaussian #3 sDev 1.22 modelId #4
    4461 
    4462 Opened cryosparc_P5_cryosparc_P5_J922_004_volume_map_sharp.mrc gaussian as #4,
    4463 grid size 300,300,300, pixel 0.844, shown at step 1, values float32 
    4464 
    4465 > transparency #4.1 50
    4466 
    4467 > select add #1
    4468 
    4469 2301 atoms, 2341 bonds, 144 residues, 1 model selected 
    4470 
    4471 > fitmap #1 inMap #4
    4472 
    4473 Fit molecule Rep_F-chain.pdb (#1) to map
    4474 cryosparc_P5_cryosparc_P5_J922_004_volume_map_sharp.mrc gaussian (#4) using
    4475 2301 atoms 
    4476 average map value = 0.2179, steps = 76 
    4477 shifted from previous position = 2.37 
    4478 rotated from previous position = 5.04 degrees 
    4479 atoms outside contour = 390, contour level = 0.11147 
    4480  
    4481 Position of Rep_F-chain.pdb (#1) relative to
    4482 cryosparc_P5_cryosparc_P5_J922_004_volume_map_sharp.mrc gaussian (#4)
    4483 coordinates: 
    4484 Matrix rotation and translation 
    4485 0.99014328 0.12126500 0.07007907 -15.37877976 
    4486 -0.13987418 0.88179397 0.45041603 -16.99984171 
    4487 -0.00717561 -0.45577866 0.89006422 70.74496544 
    4488 Axis -0.95768990 0.08164474 -0.27597861 
    4489 Axis point 0.00000000 134.14835181 71.82714793 
    4490 Rotation angle (degrees) 28.23668115 
    4491 Shift along axis -6.18394292 
    4492  
    4493 
    4494 > select clear
    4495 
    4496 The cached device pixel ratio value was stale on window expose. Please file a
    4497 QTBUG which explains how to reproduce. 
    4498 
    4499 > save /Users/nicholasferraro/Replicase/AMP-PnP-ATP/AMP-PnP-
    4500 > ATP_Models_Phenix/Rep_F-chain.pdb models #1 relModel #2
    4501 
    4502 > close
    4503 
    4504 > open /Users/nicholasferraro/Replicase/AMP-PnP-ATP/AMP-PnP-
    4505 > ATP_Models_Phenix/J905_AMP-PnP-ATP_F-chain.pdb
    4506 > /Users/nicholasferraro/Replicase/AMP-PnP-ATP/AMP-PnP-
    4507 > ATP_Models_Phenix/J906_AMP-PnP-ATP_F-chain.pdb
    4508 > /Users/nicholasferraro/Replicase/AMP-PnP-ATP/AMP-PnP-
    4509 > ATP_Models_Phenix/J907_AMP-PnP-ATP_F-chain.pdb
    4510 > /Users/nicholasferraro/Replicase/AMP-PnP-ATP/AMP-PnP-
    4511 > ATP_Models_Phenix/J908_AMP-PnP-ATP_F-chain.pdb
    4512 > /Users/nicholasferraro/Replicase/AMP-PnP-ATP/AMP-PnP-
    4513 > ATP_Models_Phenix/J909_AMP-PnP-ATP_F-chain.pdb
    4514 > /Users/nicholasferraro/Replicase/AMP-PnP-ATP/AMP-PnP-
    4515 > ATP_Models_Phenix/J921_AMP-PnP-ATP_F-chain.pdb
    4516 > /Users/nicholasferraro/Replicase/AMP-PnP-ATP/AMP-PnP-
    4517 > ATP_Models_Phenix/J922_AMP-PnP-ATP_F-chain.pdb
    4518 
    4519 Summary of feedback from opening /Users/nicholasferraro/Replicase/AMP-PnP-
    4520 ATP/AMP-PnP-ATP_Models_Phenix/J907_AMP-PnP-ATP_F-chain.pdb 
    4521 --- 
    4522 warnings | Start residue of secondary structure not found: HELIX 36 36 THR F 121 LEU F 127 1 7 
    4523 Start residue of secondary structure not found: HELIX 37 37 LEU F 132 GLN F
    4524 138 1 7 
    4525 Start residue of secondary structure not found: HELIX 38 38 VAL F 141 VAL F
    4526 144 1 4 
    4527 Start residue of secondary structure not found: HELIX 39 39 ARG F 148 SER F
    4528 157 1 10 
    4529  
    4530 Chain information for J905_AMP-PnP-ATP_F-chain.pdb #1 
    4531 --- 
    4532 Chain | Description 
    4533 A B C E | No description available 
    4534 D | No description available 
    4535 F | No description available 
    4536 G | No description available 
    4537  
    4538 Chain information for J906_AMP-PnP-ATP_F-chain.pdb #2 
    4539 --- 
    4540 Chain | Description 
    4541 A B C E | No description available 
    4542 D | No description available 
    4543 F | No description available 
    4544 G | No description available 
    4545  
    4546 Chain information for J907_AMP-PnP-ATP_F-chain.pdb #3 
    4547 --- 
    4548 Chain | Description 
    4549 A B C E | No description available 
    4550 D | No description available 
    4551 G | No description available 
    4552 f | No description available 
    4553  
    4554 Chain information for J908_AMP-PnP-ATP_F-chain.pdb #4 
    4555 --- 
    4556 Chain | Description 
    4557 A B C E | No description available 
    4558 D | No description available 
    4559 F | No description available 
    4560 G | No description available 
    4561  
    4562 Chain information for J909_AMP-PnP-ATP_F-chain.pdb #5 
    4563 --- 
    4564 Chain | Description 
    4565 A B C E | No description available 
    4566 D | No description available 
    4567 F | No description available 
    4568 G | No description available 
    4569  
    4570 Chain information for J921_AMP-PnP-ATP_F-chain.pdb #6 
    4571 --- 
    4572 Chain | Description 
    4573 A B C E | No description available 
    4574 D | No description available 
    4575 F | No description available 
    4576 G | No description available 
    4577  
    4578 Chain information for J922_AMP-PnP-ATP_F-chain.pdb #7 
    4579 --- 
    4580 Chain | Description 
    4581 A B C E | No description available 
    4582 D | No description available 
    4583 F | No description available 
    4584 G | No description available 
    4585  
    4586 
    4587 > style ball
    4588 
    4589 Changed 125942 atom styles 
    4590 
    4591 > show cartoons
    4592 
    4593 > hide atoms
    4594 
    4595 > select ligand
    4596 
    4597 2572 atoms, 2706 bonds, 70 residues, 7 models selected 
    4598 
    4599 > show sel atoms
    4600 
    4601 > select clear
    4602 
    4603 > ui tool show Matchmaker
    4604 
    4605 The cached device pixel ratio value was stale on window expose. Please file a
    4606 QTBUG which explains how to reproduce. 
    4607 
    4608 > matchmaker #2/C to #1/C pairing ss
    4609 
    4610 Parameters 
    4611 --- 
    4612 Chain pairing | ss 
    4613 Alignment algorithm | Needleman-Wunsch 
    4614 Similarity matrix | BLOSUM-62 
    4615 SS fraction | 0.3 
    4616 Gap open (HH/SS/other) | 18/18/6 
    4617 Gap extend | 1 
    4618 SS matrix |  |  | H | S | O 
    4619 ---|---|---|--- 
    4620 H | 6 | -9 | -6 
    4621 S |  | 6 | -6 
    4622 O |  |  | 4 
    4623 Iteration cutoff | 2 
    4624  
    4625 Matchmaker J905_AMP-PnP-ATP_F-chain.pdb, chain C (#1) with J906_AMP-PnP-ATP_F-
    4626 chain.pdb, chain C (#2), sequence alignment score = 951.8 
    4627 RMSD between 185 pruned atom pairs is 0.186 angstroms; (across all 185 pairs:
    4628 0.186) 
    4629  
    4630 
    4631 > ui tool show Matchmaker
    4632 
    4633 The cached device pixel ratio value was stale on window expose. Please file a
    4634 QTBUG which explains how to reproduce. 
    4635 
    4636 > matchmaker #3/C to #1/C pairing ss
    4637 
    4638 Parameters 
    4639 --- 
    4640 Chain pairing | ss 
    4641 Alignment algorithm | Needleman-Wunsch 
    4642 Similarity matrix | BLOSUM-62 
    4643 SS fraction | 0.3 
    4644 Gap open (HH/SS/other) | 18/18/6 
    4645 Gap extend | 1 
    4646 SS matrix |  |  | H | S | O 
    4647 ---|---|---|--- 
    4648 H | 6 | -9 | -6 
    4649 S |  | 6 | -6 
    4650 O |  |  | 4 
    4651 Iteration cutoff | 2 
    4652  
    4653 Matchmaker J905_AMP-PnP-ATP_F-chain.pdb, chain C (#1) with J907_AMP-PnP-ATP_F-
    4654 chain.pdb, chain C (#3), sequence alignment score = 948.2 
    4655 RMSD between 185 pruned atom pairs is 0.256 angstroms; (across all 185 pairs:
    4656 0.256) 
    4657  
    4658 
    4659 > ui tool show Matchmaker
    4660 
    4661 The cached device pixel ratio value was stale on window expose. Please file a
    4662 QTBUG which explains how to reproduce. 
    4663 
    4664 > matchmaker #4/C to #1/C pairing ss
    4665 
    4666 Parameters 
    4667 --- 
    4668 Chain pairing | ss 
    4669 Alignment algorithm | Needleman-Wunsch 
    4670 Similarity matrix | BLOSUM-62 
    4671 SS fraction | 0.3 
    4672 Gap open (HH/SS/other) | 18/18/6 
    4673 Gap extend | 1 
    4674 SS matrix |  |  | H | S | O 
    4675 ---|---|---|--- 
    4676 H | 6 | -9 | -6 
    4677 S |  | 6 | -6 
    4678 O |  |  | 4 
    4679 Iteration cutoff | 2 
    4680  
    4681 Matchmaker J905_AMP-PnP-ATP_F-chain.pdb, chain C (#1) with J908_AMP-PnP-ATP_F-
    4682 chain.pdb, chain C (#4), sequence alignment score = 890.6 
    4683 RMSD between 184 pruned atom pairs is 0.587 angstroms; (across all 185 pairs:
    4684 0.610) 
    4685  
    4686 
    4687 > ui tool show Matchmaker
    4688 
    4689 The cached device pixel ratio value was stale on window expose. Please file a
    4690 QTBUG which explains how to reproduce. 
    4691 
    4692 > matchmaker #5/C to #1/C pairing ss
    4693 
    4694 Parameters 
    4695 --- 
    4696 Chain pairing | ss 
    4697 Alignment algorithm | Needleman-Wunsch 
    4698 Similarity matrix | BLOSUM-62 
    4699 SS fraction | 0.3 
    4700 Gap open (HH/SS/other) | 18/18/6 
    4701 Gap extend | 1 
    4702 SS matrix |  |  | H | S | O 
    4703 ---|---|---|--- 
    4704 H | 6 | -9 | -6 
    4705 S |  | 6 | -6 
    4706 O |  |  | 4 
    4707 Iteration cutoff | 2 
    4708  
    4709 Matchmaker J905_AMP-PnP-ATP_F-chain.pdb, chain C (#1) with J909_AMP-PnP-ATP_F-
    4710 chain.pdb, chain C (#5), sequence alignment score = 864.2 
    4711 RMSD between 184 pruned atom pairs is 0.600 angstroms; (across all 185 pairs:
    4712 0.625) 
    4713  
    4714 
    4715 > ui tool show Matchmaker
    4716 
    4717 The cached device pixel ratio value was stale on window expose. Please file a
    4718 QTBUG which explains how to reproduce. 
    4719 
    4720 > matchmaker #5/C to #1/C pairing ss
    4721 
    4722 Parameters 
    4723 --- 
    4724 Chain pairing | ss 
    4725 Alignment algorithm | Needleman-Wunsch 
    4726 Similarity matrix | BLOSUM-62 
    4727 SS fraction | 0.3 
    4728 Gap open (HH/SS/other) | 18/18/6 
    4729 Gap extend | 1 
    4730 SS matrix |  |  | H | S | O 
    4731 ---|---|---|--- 
    4732 H | 6 | -9 | -6 
    4733 S |  | 6 | -6 
    4734 O |  |  | 4 
    4735 Iteration cutoff | 2 
    4736  
    4737 Matchmaker J905_AMP-PnP-ATP_F-chain.pdb, chain C (#1) with J909_AMP-PnP-ATP_F-
    4738 chain.pdb, chain C (#5), sequence alignment score = 864.2 
    4739 RMSD between 184 pruned atom pairs is 0.600 angstroms; (across all 185 pairs:
    4740 0.625) 
    4741  
    4742 
    4743 > ui tool show Matchmaker
    4744 
    4745 The cached device pixel ratio value was stale on window expose. Please file a
    4746 QTBUG which explains how to reproduce. 
    4747 
    4748 > matchmaker #7/C to #1/C pairing ss
    4749 
    4750 Parameters 
    4751 --- 
    4752 Chain pairing | ss 
    4753 Alignment algorithm | Needleman-Wunsch 
    4754 Similarity matrix | BLOSUM-62 
    4755 SS fraction | 0.3 
    4756 Gap open (HH/SS/other) | 18/18/6 
    4757 Gap extend | 1 
    4758 SS matrix |  |  | H | S | O 
    4759 ---|---|---|--- 
    4760 H | 6 | -9 | -6 
    4761 S |  | 6 | -6 
    4762 O |  |  | 4 
    4763 Iteration cutoff | 2 
    4764  
    4765 Matchmaker J905_AMP-PnP-ATP_F-chain.pdb, chain C (#1) with J922_AMP-PnP-ATP_F-
    4766 chain.pdb, chain C (#7), sequence alignment score = 870.8 
    4767 RMSD between 183 pruned atom pairs is 0.650 angstroms; (across all 185 pairs:
    4768 0.694) 
    4769  
    4770 
    4771 > cartoon style modeHelix tube sides 20
    4772 
    4773 > ui tool show Matchmaker
    4774 
    4775 The cached device pixel ratio value was stale on window expose. Please file a
    4776 QTBUG which explains how to reproduce. 
    4777 
    4778 > matchmaker #7/C to #1/C pairing ss
    4779 
    4780 Parameters 
    4781 --- 
    4782 Chain pairing | ss 
    4783 Alignment algorithm | Needleman-Wunsch 
    4784 Similarity matrix | BLOSUM-62 
    4785 SS fraction | 0.3 
    4786 Gap open (HH/SS/other) | 18/18/6 
    4787 Gap extend | 1 
    4788 SS matrix |  |  | H | S | O 
    4789 ---|---|---|--- 
    4790 H | 6 | -9 | -6 
    4791 S |  | 6 | -6 
    4792 O |  |  | 4 
    4793 Iteration cutoff | 2 
    4794  
    4795 Matchmaker J905_AMP-PnP-ATP_F-chain.pdb, chain C (#1) with J922_AMP-PnP-ATP_F-
    4796 chain.pdb, chain C (#7), sequence alignment score = 870.8 
    4797 RMSD between 183 pruned atom pairs is 0.650 angstroms; (across all 185 pairs:
    4798 0.694) 
    4799  
    4800 
    4801 > select #1/A#2/A#3/A#4/A#5/A#6/A#7/A
    4802 
    4803 20789 atoms, 21104 bonds, 7 pseudobonds, 1309 residues, 14 models selected 
    4804 
    4805 > color (#!1-7 & sel) #ff85ffff
    4806 
    4807 > select #1/B#2/B#3/B#4/B#5/B#6/B#7/B
    4808 
    4809 20783 atoms, 21095 bonds, 6 pseudobonds, 1309 residues, 13 models selected 
    4810 
    4811 > color (#!1-7 & sel) #73fa79ff
    4812 
    4813 > select #1/C#2/C#3/C#4/C#5/C#6/C#7/C
    4814 
    4815 20780 atoms, 21095 bonds, 4 pseudobonds, 1309 residues, 11 models selected 
    4816 
    4817 > color (#!1-7 & sel) #7a81ffff
    4818 
    4819 > color (#!1-7 & sel) #76d6ffff
    4820 
    4821 > select #1/C#2/C#3/C#4/C#5/C#6/C#7/C
    4822 
    4823 20780 atoms, 21095 bonds, 4 pseudobonds, 1309 residues, 11 models selected 
    4824 
    4825 > color (#!1-7 & sel) #7a81ffff
    4826 
    4827 > select #1/D#2/D#3/D#4/D#5/D#6/D#7/D
    4828 
    4829 20879 atoms, 21208 bonds, 2 pseudobonds, 1316 residues, 9 models selected 
    4830 
    4831 > color (#!1-7 & sel) #76d6ffff
    4832 
    4833 > select #1/E#2/E#3/E#4/E#5/E#6/E#7/E
    4834 
    4835 20654 atoms, 20972 bonds, 1300 residues, 7 models selected 
    4836 
    4837 > color sel #fffc79ff
    4838 
    4839 > select #1/F#2/F#4/F#5/F#6/F#7/F
    4840 
    4841 17378 atoms, 17635 bonds, 1 pseudobond, 1098 residues, 7 models selected 
    4842 
    4843 > color (#!1-2,4-7 & sel) #ff7e79ff
    4844 
    4845 > select clear
    4846 
    4847 > select ligand
    4848 
    4849 2572 atoms, 2706 bonds, 70 residues, 7 models selected 
    4850 
    4851 > color sel byhetero
    4852 
    4853 > color sel #919191ff
    4854 
    4855 > color sel byhetero
    4856 
    4857 > select clear
    4858 
    4859 > hide #!1 models
    4860 
    4861 > hide #!3 models
    4862 
    4863 > hide #!4 models
    4864 
    4865 > hide #!5 models
    4866 
    4867 > hide #!7 models
    4868 
    4869 > hide #!6 models
    4870 
    4871 > show #!3 models
    4872 
    4873 > show #!4 models
    4874 
    4875 > show #!5 models
    4876 
    4877 > show #!6 models
    4878 
    4879 > show #!1 models
    4880 
    4881 > show #!7 models
    4882 
    4883 > hide #!7 models
    4884 
    4885 > hide #!1 models
    4886 
    4887 > show #!7 models
    4888 
    4889 > show #!1 models
    4890 
    4891 > hide #!2 models
    4892 
    4893 > hide #!1 models
    4894 
    4895 > hide #!3 models
    4896 
    4897 > hide #!4 models
    4898 
    4899 > hide #!5 models
    4900 
    4901 > hide #!6 models
    4902 
    4903 > hide #!7 models
    4904 
    4905 > show #!2 models
    4906 
    4907 > select nucleic-acid
    4908 
    4909 1745 atoms, 1843 bonds, 54 residues, 7 models selected 
    4910 
    4911 > show sel & #!2 atoms
    4912 
    4913 > hide sel & #!2 cartoons
    4914 
    4915 > view matrix models
    4916 > #1,0.99309,-0.093215,-0.071231,22.664,0.088214,0.99361,-0.070392,-1.601,0.077338,0.063622,0.99497,-18.052,#2,0.99324,-0.094897,-0.066797,22.364,0.090523,0.99372,-0.065731,-2.3817,0.072615,0.059241,0.9956,-16.997,#3,0.99355,-0.091618,-0.066891,21.636,0.087175,0.99397,-0.066571,-2.1157,0.072587,0.06031,0.99554,-17.17,#4,0.99185,-0.097372,-0.082187,24.641,0.091886,0.99344,-0.068099,-2.4964,0.088279,0.059992,0.99429,-18.739,#5,0.99106,-0.099347,-0.089052,25.852,0.093935,0.99358,-0.06304,-3.3804,0.094743,0.054111,0.99403,-18.61,#6,0.99309,-0.093215,-0.071231,22.664,0.088214,0.99361,-0.070392,-1.601,0.077338,0.063622,0.99497,-18.052,#7,0.99212,-0.093933,-0.082878,23.44,0.08437,0.9901,-0.11219,4.7428,0.092596,0.10431,0.99022,-24.949
    4917 
    4918 > select clear
    4919 
    4920 The cached device pixel ratio value was stale on window expose. Please file a
    4921 QTBUG which explains how to reproduce. 
    4922 
    4923 > delete bonds sel
    4924 
    4925 > select clear
    4926 
    4927 The cached device pixel ratio value was stale on window expose. Please file a
    4928 QTBUG which explains how to reproduce. 
    4929 
    4930 > delete bonds sel
    4931 
    4932 > show #!3 models
    4933 
    4934 > hide #!2 models
    4935 
    4936 > show #!4 models
    4937 
    4938 > show #!5 models
    4939 
    4940 > show #!6 models
    4941 
    4942 > hide #!5 models
    4943 
    4944 > hide #!4 models
    4945 
    4946 > hide #!3 models
    4947 
    4948 > show #!1 models
    4949 
    4950 > show #!2 models
    4951 
    4952 > show #!3 models
    4953 
    4954 > show #!4 models
    4955 
    4956 > show #!5 models
    4957 
    4958 > show #!7 models
    4959 
    4960 > hide #!7 models
    4961 
    4962 > show #!7 models
    4963 
    4964 > hide #!7 models
    4965 
    4966 > show #!7 models
    4967 
    4968 > hide #!7 models
    4969 
    4970 > show #!7 models
    4971 
    4972 > hide #!7 models
    4973 
    4974 > hide #!1 models
    4975 
    4976 > show #!1 models
    4977 
    4978 > show #!7 models
    4979 
    4980 > morph start #2,#3,#4,#5,#6,#1,#7
    4981 
    4982 Missing or invalid "structures" argument: invalid structures specifier 
    4983 
    4984 > morph start #2 #3 #4 #5 #6 #1 #7
    4985 
    4986 Missing or invalid "structures" argument: invalid structures specifier 
    4987 
    4988 > morph start #2,3,4,5,6,1,7
    4989 
    4990 Missing or invalid "structures" argument: invalid structures specifier 
    4991 
    4992 > morph #2,3,4,5,6,1,7
    4993 
    4994 models have different number of chains, 5 (Morph - J906_AMP-PnP-ATP_F-
    4995 chain.pdb #/A,Morph - J906_AMP-PnP-ATP_F-chain.pdb #/B,Morph - J906_AMP-PnP-
    4996 ATP_F-chain.pdb #/C,Morph - J906_AMP-PnP-ATP_F-chain.pdb #/D,Morph - J906_AMP-
    4997 PnP-ATP_F-chain.pdb #/E) and 7 (J908_AMP-PnP-ATP_F-chain.pdb #4/A,J908_AMP-
    4998 PnP-ATP_F-chain.pdb #4/B,J908_AMP-PnP-ATP_F-chain.pdb #4/C,J908_AMP-PnP-ATP_F-
    4999 chain.pdb #4/D,J908_AMP-PnP-ATP_F-chain.pdb #4/E,J908_AMP-PnP-ATP_F-chain.pdb
    5000 #4/F,J908_AMP-PnP-ATP_F-chain.pdb #4/G) 
    5001 
    5002 > hide #!1 models
    5003 
    5004 > hide #!2 models
    5005 
    5006 > hide #!3 models
    5007 
    5008 > hide #!5 models
    5009 
    5010 > hide #!4 models
    5011 
    5012 > hide #!6 models
    5013 
    5014 > hide #!7 models
    5015 
    5016 > show #!2 models
    5017 
    5018 > select #3/f
    5019 
    5020 2896 atoms, 2940 bonds, 183 residues, 1 model selected 
    5021 
    5022 > hide #!2 models
    5023 
    5024 > show #!3 models
    5025 
    5026 > close #3
    5027 
    5028 > open /Users/nicholasferraro/Replicase/AMP-PnP-ATP/AMP-PnP-
    5029 > ATP_Models_Phenix/J907_AMP-PnP-ATP_F-chain.pdb
    5030 
    5031 Chain information for J907_AMP-PnP-ATP_F-chain.pdb #3 
    5032 --- 
    5033 Chain | Description 
    5034 A B C E | No description available 
    5035 D | No description available 
    5036 F | No description available 
    5037 G | No description available 
    5038  
    5039 
    5040 > show #!1 models
    5041 
    5042 > show #!2 models
    5043 
    5044 > show #!4 models
    5045 
    5046 > show #!5 models
    5047 
    5048 > show #!6 models
    5049 
    5050 > show #!7 models
    5051 
    5052 > select #1/A#2/A#3/A#4/A#5/A#6/A#7/A
    5053 
    5054 20789 atoms, 21104 bonds, 7 pseudobonds, 1309 residues, 14 models selected 
    5055 
    5056 The cached device pixel ratio value was stale on window expose. Please file a
    5057 QTBUG which explains how to reproduce. 
    5058 
    5059 > color (#!1-7 & sel) #ff85ffff
    5060 
    5061 > select #1/B#2/B#3/B#4/B#5/B#6/B#7/B
    5062 
    5063 20783 atoms, 21095 bonds, 6 pseudobonds, 1309 residues, 13 models selected 
    5064 
    5065 > color (#!1-7 & sel) #73fa79ff
    5066 
    5067 > select #1/C#2/C#3/C#4/C#5/C#6/C#7/C
    5068 
    5069 20780 atoms, 21095 bonds, 4 pseudobonds, 1309 residues, 11 models selected 
    5070 
    5071 > color (#!1-7 & sel) #7a81ffff
    5072 
    5073 > select #1/D#2/D#3/D#4/D#5/D#6/D#7/D
    5074 
    5075 20879 atoms, 21208 bonds, 2 pseudobonds, 1316 residues, 9 models selected 
    5076 
    5077 > color (#!1-7 & sel) #76d6ffff
    5078 
    5079 > select #1/E#2/E#3/E#4/E#5/E#6/E#7/E
    5080 
    5081 20654 atoms, 20972 bonds, 1300 residues, 7 models selected 
    5082 
    5083 > color sel #fffc79ff
    5084 
    5085 > select #1/F#2/F#3/F#4/F#5/F#6/F#7/F
    5086 
    5087 20274 atoms, 20575 bonds, 1 pseudobond, 1281 residues, 8 models selected 
    5088 
    5089 > color (#!1-7 & sel) #ff7e79ff
    5090 
    5091 > style sel ball
    5092 
    5093 Changed 20274 atom styles 
    5094 
    5095 > select clear
    5096 
    5097 > style ball
    5098 
    5099 Changed 125942 atom styles 
    5100 
    5101 > show cartoons
    5102 
    5103 > hide atoms
    5104 
    5105 > select nucleic-acid
    5106 
    5107 1745 atoms, 1841 bonds, 2 pseudobonds, 54 residues, 8 models selected 
    5108 
    5109 > show sel atoms
    5110 
    5111 > select clear
    5112 
    5113 > select ligand
    5114 
    5115 2572 atoms, 2706 bonds, 70 residues, 7 models selected 
    5116 
    5117 > show sel atoms
    5118 
    5119 > color sel dim gray
    5120 
    5121 > color sel byhetero
    5122 
    5123 > select clear
    5124 
    5125 > ui tool show Matchmaker
    5126 
    5127 > matchmaker #3/C to #1/C pairing ss
    5128 
    5129 Parameters 
    5130 --- 
    5131 Chain pairing | ss 
    5132 Alignment algorithm | Needleman-Wunsch 
    5133 Similarity matrix | BLOSUM-62 
    5134 SS fraction | 0.3 
    5135 Gap open (HH/SS/other) | 18/18/6 
    5136 Gap extend | 1 
    5137 SS matrix |  |  | H | S | O 
    5138 ---|---|---|--- 
    5139 H | 6 | -9 | -6 
    5140 S |  | 6 | -6 
    5141 O |  |  | 4 
    5142 Iteration cutoff | 2 
    5143  
    5144 Matchmaker J905_AMP-PnP-ATP_F-chain.pdb, chain C (#1) with J907_AMP-PnP-ATP_F-
    5145 chain.pdb, chain C (#3), sequence alignment score = 948.2 
    5146 RMSD between 185 pruned atom pairs is 0.256 angstroms; (across all 185 pairs:
    5147 0.256) 
    5148  
    5149 
    5150 > morph #2,3,4,5,6,1,7
    5151 
    5152 Computed 301 frame morph #8 
    5153 
    5154 > coordset #8 1,301
    5155 
    5156 > close #8
    5157 
    5158 > morph #2,3,4,5,7,1,6
    5159 
    5160 Computed 301 frame morph #8 
    5161 
    5162 > coordset #8 1,301
    5163 
    5164 > select ligand
    5165 
    5166 2572 atoms, 2706 bonds, 70 residues, 7 models selected 
    5167 
    5168 > show #!8 atoms
    5169 
    5170 > hide #!8 atoms
    5171 
    5172 > hide #!8 models
    5173 
    5174 > show #!6 models
    5175 
    5176 > show #!7 models
    5177 
    5178 > hide #!6 models
    5179 
    5180 > hide #!7 models
    5181 
    5182 > show #!2 models
    5183 
    5184 > show #!3 models
    5185 
    5186 > hide #!3 models
    5187 
    5188 > show #!3 models
    5189 
    5190 > hide #!2 models
    5191 
    5192 > show #!4 models
    5193 
    5194 > hide #!4 models
    5195 
    5196 > show #!4 models
    5197 
    5198 > hide #!3 models
    5199 
    5200 > show #!2 models
    5201 
    5202 > hide #!4 models
    5203 
    5204 > show #!4 models
    5205 
    5206 > show #!3 models
    5207 
    5208 > hide #!3 models
    5209 
    5210 > hide #!2 models
    5211 
    5212 > show #!5 models
    5213 
    5214 > hide #!5 models
    5215 
    5216 > show #!6 models
    5217 
    5218 > hide #!6 models
    5219 
    5220 > show #!7 models
    5221 
    5222 > hide #!7 models
    5223 
    5224 > show #!1 models
    5225 
    5226 > hide #!1 models
    5227 
    5228 > show #!5 models
    5229 
    5230 > show #!6 models
    5231 
    5232 > show #!7 models
    5233 
    5234 > show #!1 models
    5235 
    5236 > show #!3 models
    5237 
    5238 > show #!2 models
    5239 
    5240 > morph #2,4,3,5,6,7,1
    5241 
    5242 Computed 301 frame morph #9 
    5243 
    5244 > coordset #9 1,301
    5245 
    5246 > hide #!9 models
    5247 
    5248 > show #!8 models
    5249 
    5250 > show #!7 models
    5251 
    5252 > hide #!8 models
    5253 
    5254 > hide #!7 models
    5255 
    5256 > show #!7 models
    5257 
    5258 > show #!8 models
    5259 
    5260 > hide #!7 models
    5261 
    5262 > cartoon style #8 modeHelix tube sides 20
    5263 
    5264 > select #1/A#2/A#3/A#4/A#5/A#6/A#7/A#8/A#9/A
    5265 
    5266 26631 atoms, 27034 bonds, 7 pseudobonds, 1679 residues, 16 models selected 
    5267 
    5268 > cartoon style (#!8 & sel) modeHelix tube sides 20
    5269 
    5270 > hide #!8 models
    5271 
    5272 > show #!8 models
    5273 
    5274 > show #!7 models
    5275 
    5276 > hide #!7 models
    5277 
    5278 > show #!7 models
    5279 
    5280 > show #!6 models
    5281 
    5282 > show #!5 models
    5283 
    5284 > show #!4 models
    5285 
    5286 > show #!3 models
    5287 
    5288 > show #!2 models
    5289 
    5290 > show #!1 models
    5291 
    5292 > hide #!1 models
    5293 
    5294 > hide #!2 models
    5295 
    5296 > hide #!3 models
    5297 
    5298 > hide #!4 models
    5299 
    5300 > hide #!5 models
    5301 
    5302 > hide #!6 models
    5303 
    5304 > hide #!7 models
    5305 
    5306 > select clear
    5307 
    5308 > select #7/A
    5309 
    5310 2970 atoms, 3015 bonds, 1 pseudobond, 187 residues, 2 models selected 
    5311 
    5312 > cartoon style #8 modeHelix tube sides 20
    5313 
    5314 > select #7/A
    5315 
    5316 2970 atoms, 3015 bonds, 1 pseudobond, 187 residues, 2 models selected 
    5317 
    5318 > hide #!8 models
    5319 
    5320 > show #!7 models
    5321 
    5322 > show #!6 models
    5323 
    5324 > show #!5 models
    5325 
    5326 > show #!4 models
    5327 
    5328 > show #!3 models
    5329 
    5330 > show #!2 models
    5331 
    5332 > show #!1 models
    5333 
    5334 > show #!9 models
    5335 
    5336 > hide #!9 models
    5337 
    5338 > close #8
    5339 
    5340 > show #!9 models
    5341 
    5342 > hide #!7 models
    5343 
    5344 > hide #!6 models
    5345 
    5346 > hide #!5 models
    5347 
    5348 > hide #!4 models
    5349 
    5350 > hide #!3 models
    5351 
    5352 > hide #!2 models
    5353 
    5354 > hide #!1 models
    5355 
    5356 > morph #2,4,3,5,6,7,1 frames 40
    5357 
    5358 Computed 241 frame morph #8 
    5359 
    5360 > coordset #8 1,241
    5361 
    5362 > hide #!8 models
    5363 
    5364 > close #8
    5365 
    5366 > close #9
    5367 
    5368 > morph #2,4,3,5,6,7,1 frames 40
    5369 
    5370 Computed 241 frame morph #8 
    5371 
    5372 > coordset #8 1,241
    5373 
    5374 > select ligand
    5375 
    5376 2572 atoms, 2706 bonds, 70 residues, 7 models selected 
    5377 
    5378 > show #!8 atoms
    5379 
    5380 > hide #!8 atoms
    5381 
    5382 > select nucleic-acid
    5383 
    5384 1938 atoms, 2042 bonds, 2 pseudobonds, 60 residues, 9 models selected 
    5385 
    5386 > show sel & #!8 atoms
    5387 
    5388 > hide #!8 models
    5389 
    5390 > show #!1 models
    5391 
    5392 > hide #!1 models
    5393 
    5394 > show #!2 models
    5395 
    5396 > select clear
    5397 
    5398 > show #!1 models
    5399 
    5400 > show #!3 models
    5401 
    5402 > show #!4 models
    5403 
    5404 > show #!5 models
    5405 
    5406 > show #!6 models
    5407 
    5408 > show #!7 models
    5409 
    5410 > select nucleic-acid
    5411 
    5412 1938 atoms, 2042 bonds, 2 pseudobonds, 60 residues, 9 models selected 
    5413 
    5414 > color (#!1-7 & sel) dim gray
    5415 
    5416 > color sel & #!1-7 byhetero
    5417 
    5418 > select clear
    5419 
    5420 > hide #!1 models
    5421 
    5422 > hide #!2 models
    5423 
    5424 > hide #!3 models
    5425 
    5426 > hide #!4 models
    5427 
    5428 > hide #!5 models
    5429 
    5430 > hide #!6 models
    5431 
    5432 > hide #!7 models
    5433 
    5434 > show #!2 models
    5435 
    5436 Drag select of 123 atoms, 40 residues, 2 pseudobonds, 129 bonds 
    5437 
    5438 > select clear
    5439 
    5440 > hide #!2 models
    5441 
    5442 > show #!2 models
    5443 
    5444 > show #!3 models
    5445 
    5446 > show #!4 models
    5447 
    5448 > hide #!4 models
    5449 
    5450 > select #2/A
    5451 
    5452 2970 atoms, 3015 bonds, 1 pseudobond, 187 residues, 2 models selected 
    5453 
    5454 > cartoon style (#!2 & sel) modeHelix tube sides 20
    5455 
    5456 > hide #!2 models
    5457 
    5458 > cartoon style #3 modeHelix tube sides 20
    5459 
    5460 > hide #!3 models
    5461 
    5462 > show #!2 models
    5463 
    5464 > select clear
    5465 
    5466 > cartoon style #2 modeHelix tube sides 20
    5467 
    5468 > show #!3 models
    5469 
    5470 > hide #!3 models
    5471 
    5472 > show #!3 models
    5473 
    5474 > hide #!3 models
    5475 
    5476 > show #!3 models
    5477 
    5478 > hide #!3 models
    5479 
    5480 > hide #!2 models
    5481 
    5482 > show #!3 models
    5483 
    5484 > show #!2 models
    5485 
    5486 > hide #!2 models
    5487 
    5488 > show #!4 models
    5489 
    5490 > hide #!4 models
    5491 
    5492 > morph #3,2,4,5,6,7,1 frames 40
    5493 
    5494 Computed 241 frame morph #9 
    5495 
    5496 > coordset #9 1,241
    5497 
    5498 > morph #3,2,4,5,6,7,1 frames 30
    5499 
    5500 Computed 181 frame morph #10 
    5501 
    5502 > coordset #10 1,181
    5503 
    5504 > hide #!9 models
    5505 
    5506 > hide #!10 models
    5507 
    5508 > show #!3 models
    5509 
    5510 > show #!2 models
    5511 
    5512 > hide #!2 models
    5513 
    5514 > show #!2 models
    5515 
    5516 > hide #!2 models
    5517 
    5518 > hide #!3 models
    5519 
    5520 > show #!4 models
    5521 
    5522 > show #!5 models
    5523 
    5524 > show #!6 models
    5525 
    5526 > hide #!4 models
    5527 
    5528 > hide #!5 models
    5529 
    5530 > hide #!6 models
    5531 
    5532 > show #!1 models
    5533 
    5534 > hide #!1 models
    5535 
    5536 > show #!2 models
    5537 
    5538 > close #2
    5539 
    5540 > show #!8 models
    5541 
    5542 > hide #!8 models
    5543 
    5544 > morph #1,7,6,5,4,2,3 frames 40
    5545 
    5546 Computed 201 frame morph #2 
    5547 
    5548 > coordset #2 1,201
    5549 
    5550 > morph #1,7,6,5,4,2,3 frames 15
    5551 
    5552 Computed 91 frame morph #11 
    5553 
    5554 > coordset #11 1,91
    5555 
    5556 > morph #1,7,6,5, frames 15
    5557 
    5558 Missing or invalid "structures" argument: only initial part "#1,7,6,5" of atom
    5559 specifier valid 
    5560 
    5561 > morph #1,7,6,5 frames 15
    5562 
    5563 Computed 46 frame morph #12 
    5564 
    5565 > coordset #12 1,46
    5566 
    5567 > hide #!11 models
    5568 
    5569 > hide #!12 models
    5570 
    5571 > show #!4 models
    5572 
    5573 > show #!3 models
    5574 
    5575 > show #!2 models
    5576 
    5577 > hide #!2 models
    5578 
    5579 > show #!2 models
    5580 
    5581 > hide #!2 models
    5582 
    5583 > close #2
    5584 
    5585 > show #!1 models
    5586 
    5587 > hide #!1 models
    5588 
    5589 > hide #!3 models
    5590 
    5591 > show #!3 models
    5592 
    5593 > hide #!3 models
    5594 
    5595 > show #!3 models
    5596 
    5597 > hide #!3 models
    5598 
    5599 > show #!3 models
    5600 
    5601 > hide #!3 models
    5602 
    5603 > hide #!4 models
    5604 
    5605 > show #!4 models
    5606 
    5607 > show #!5 models
    5608 
    5609 > hide #!5 models
    5610 
    5611 > show #!5 models
    5612 
    5613 > hide #!5 models
    5614 
    5615 > show #!5 models
    5616 
    5617 > hide #!5 models
    5618 
    5619 > close #10-11
    5620 
    5621 > hide #!4 models
    5622 
    5623 > show #!12 models
    5624 
    5625 > select #1/E#3/E#4/E#5/E#6/E#7/E#8/E#9/E#12/E
    5626 
    5627 26463 atoms, 26867 bonds, 1669 residues, 9 models selected 
    5628 
    5629 > select subtract #12/E:185
    5630 
    5631 26453 atoms, 26856 bonds, 1668 residues, 9 models selected 
    5632 
    5633 > hide sel atoms
    5634 
    5635 > select clear
    5636 
    5637 > morph #15,6,7,1 frames 5
    5638 
    5639 Computed 11 frame morph #2 
    5640 
    5641 > coordset #2 1,11
    5642 
    5643 > hide #!2 models
    5644 
    5645 > show #!2 models
    5646 
    5647 > hide #!12 models
    5648 
    5649 > close #2
    5650 
    5651 > close #12
    5652 
    5653 > morph #5,6,7,1 frames 10
    5654 
    5655 Computed 31 frame morph #2 
    5656 
    5657 > coordset #2 1,31
    5658 
    5659 > open /Users/nicholasferraro/Replicase/AMP-PnP-ATP/AMP-PnP-
    5660 > ATP_Models_Phenix/J906_AMP-PnP-ATP_F-chain.pdb
    5661 
    5662 Chain information for J906_AMP-PnP-ATP_F-chain.pdb #10 
    5663 --- 
    5664 Chain | Description 
    5665 A B C E | No description available 
    5666 D | No description available 
    5667 F | No description available 
    5668 G | No description available 
    5669  
    5670 
    5671 > hide #!2 models
    5672 
    5673 > style #!10 ball
    5674 
    5675 Changed 18314 atom styles 
    5676 
    5677 > select #10/A
    5678 
    5679 2970 atoms, 3015 bonds, 1 pseudobond, 187 residues, 2 models selected 
    5680 
    5681 > ui tool show "Color Actions"
    5682 
    5683 > color (#!10 & sel) #ff85ffff
    5684 
    5685 > select #10/B
    5686 
    5687 2967 atoms, 3009 bonds, 1 pseudobond, 187 residues, 2 models selected 
    5688 
    5689 > color (#!10 & sel) #73fa79ff
    5690 
    5691 > select #10/C
    5692 
    5693 2967 atoms, 3012 bonds, 187 residues, 1 model selected 
    5694 
    5695 > color sel #7a81ffff
    5696 
    5697 > select #10/D
    5698 
    5699 2978 atoms, 3025 bonds, 1 pseudobond, 188 residues, 2 models selected 
    5700 
    5701 > color (#!10 & sel) #76d6ffff
    5702 
    5703 > select #10/E
    5704 
    5705 2956 atoms, 3002 bonds, 186 residues, 1 model selected 
    5706 
    5707 > color sel #fffc79ff
    5708 
    5709 > select #10/F
    5710 
    5711 2894 atoms, 2936 bonds, 1 pseudobond, 183 residues, 2 models selected 
    5712 
    5713 > color (#!10 & sel) #ff7e79ff
    5714 
    5715 > select clear
    5716 
    5717 > delete bonds sel
    5718 
    5719 > select ligand
    5720 
    5721 2958 atoms, 3108 bonds, 82 residues, 9 models selected 
    5722 
    5723 > color (#!10 & sel) #929292ff
    5724 
    5725 > color sel & #!10 byhetero
    5726 
    5727 > select nucleic-acid
    5728 
    5729 2324 atoms, 2444 bonds, 2 pseudobonds, 72 residues, 11 models selected 
    5730 
    5731 > color (#!10 & sel) #a9a9a9ff
    5732 
    5733 > color (#!10 & sel) #929292ff
    5734 
    5735 > color sel & #!10 byhetero
    5736 
    5737 > select clear
    5738 
    5739 > close #9
    5740 
    5741 > close #8
    5742 
    5743 > close #2
    5744 
    5745 > show #!7 models
    5746 
    5747 > show #!6 models
    5748 
    5749 > hide #!7 models
    5750 
    5751 > show #!7 models
    5752 
    5753 > hide #!7 models
    5754 
    5755 > hide #!6 models
    5756 
    5757 > show #!7 models
    5758 
    5759 > show #!6 models
    5760 
    5761 > show #!5 models
    5762 
    5763 > show #!4 models
    5764 
    5765 > show #!3 models
    5766 
    5767 > show #!1 models
    5768 
    5769 > show surfaces
    5770 
    5771 > hide #!10 models
    5772 
    5773 > hide #!1 models
    5774 
    5775 > show #!10 models
    5776 
    5777 > hide #!10 models
    5778 
    5779 > show #!10 models
    5780 
    5781 > hide #!10 models
    5782 
    5783 > hide #!7 models
    5784 
    5785 > hide #!6 models
    5786 
    5787 > hide #!5 models
    5788 
    5789 > hide #!4 models
    5790 
    5791 > hide #!3 models
    5792 
    5793 > show #!1 models
    5794 
    5795 > show #!10 models
    5796 
    5797 > ui tool show Matchmaker
    5798 
    5799 > matchmaker #10/C to #1/C pairing ss
    5800 
    5801 Parameters 
    5802 --- 
    5803 Chain pairing | ss 
    5804 Alignment algorithm | Needleman-Wunsch 
    5805 Similarity matrix | BLOSUM-62 
    5806 SS fraction | 0.3 
    5807 Gap open (HH/SS/other) | 18/18/6 
    5808 Gap extend | 1 
    5809 SS matrix |  |  | H | S | O 
    5810 ---|---|---|--- 
    5811 H | 6 | -9 | -6 
    5812 S |  | 6 | -6 
    5813 O |  |  | 4 
    5814 Iteration cutoff | 2 
    5815  
    5816 Matchmaker J905_AMP-PnP-ATP_F-chain.pdb, chain C (#1) with J906_AMP-PnP-ATP_F-
    5817 chain.pdb, chain C (#10), sequence alignment score = 951.8 
    5818 RMSD between 185 pruned atom pairs is 0.186 angstroms; (across all 185 pairs:
    5819 0.186) 
    5820  
    5821 
    5822 > hide #!10 models
    5823 
    5824 > show #!10 models
    5825 
    5826 > hide #!10 models
    5827 
    5828 > show #!10 models
    5829 
    5830 > hide #!10 models
    5831 
    5832 > show #!10 models
    5833 
    5834 > hide #!10 models
    5835 
    5836 > show #!10 models
    5837 
    5838 > hide #!10 models
    5839 
    5840 > show #!10 models
    5841 
    5842 > hide #!10 models
    5843 
    5844 > show #!10 models
    5845 
    5846 > hide #!10 models
    5847 
    5848 > show #!3 models
    5849 
    5850 > hide #!3 models
    5851 
    5852 > show #!4 models
    5853 
    5854 > hide #!4 models
    5855 
    5856 > show #!5 models
    5857 
    5858 > hide #!5 models
    5859 
    5860 > show #!6 models
    5861 
    5862 > hide #!6 models
    5863 
    5864 > show #!7 models
    5865 
    5866 > hide #!7 models
    5867 
    5868 > show #!10 models
    5869 
    5870 > hide #!10 models
    5871 
    5872 > show #!7 models
    5873 
    5874 > show #!6 models
    5875 
    5876 > show #!5 models
    5877 
    5878 > show #!4 models
    5879 
    5880 > show #!3 models
    5881 
    5882 > show #!10 models
    5883 
    5884 > morph #7,6,5,4,3,2,1,10 frames 20
    5885 
    5886 Computed 121 frame morph #2 
    5887 
    5888 > coordset #2 1,121
    5889 
    5890 > select protein
    5891 
    5892 140239 atoms, 142351 bonds, 2 pseudobonds, 8872 residues, 10 models selected 
    5893 
    5894 > show sel & #!2 surfaces
    5895 
    5896 > select clear
    5897 
    5898 > show #!1 models
    5899 
    5900 > hide #!1 models
    5901 
    5902 > close #2
    5903 
    5904 > show #!4 models
    5905 
    5906 > show #!3 models
    5907 
    5908 > show #!5 models
    5909 
    5910 > hide #!4 models
    5911 
    5912 > hide #!3 models
    5913 
    5914 > show #!6 models
    5915 
    5916 > show #!7 models
    5917 
    5918 > show #!10 models
    5919 
    5920 > hide #!10 models
    5921 
    5922 > hide #!7 models
    5923 
    5924 > hide #!6 models
    5925 
    5926 > hide #!5 models
    5927 
    5928 > show #!5 models
    5929 
    5930 > show #!6 models
    5931 
    5932 > hide #!6 models
    5933 
    5934 > show #!6 models
    5935 
    5936 > hide #!6 models
    5937 
    5938 > show #!6 models
    5939 
    5940 > hide #!6 models
    5941 
    5942 > show #!6 models
    5943 
    5944 > hide #!6 models
    5945 
    5946 > show #!1 models
    5947 
    5948 > hide #!5 models
    5949 
    5950 > show #!6 models
    5951 
    5952 > hide #!6 models
    5953 
    5954 > show #!6 models
    5955 
    5956 > hide #!6 models
    5957 
    5958 > show #!5 models
    5959 
    5960 > hide #!5 models
    5961 
    5962 > show #!4 models
    5963 
    5964 > hide #!4 models
    5965 
    5966 > show #!4 models
    5967 
    5968 > hide #!4 models
    5969 
    5970 > show #!3 models
    5971 
    5972 > hide #!3 models
    5973 
    5974 > show #!4 models
    5975 
    5976 > hide #!4 models
    5977 
    5978 > show #!5 models
    5979 
    5980 > hide #!5 models
    5981 
    5982 > show #!6 models
    5983 
    5984 > hide #!6 models
    5985 
    5986 > show #!6 models
    5987 
    5988 > hide #!6 models
    5989 
    5990 > show #!6 models
    5991 
    5992 > hide #!6 models
    5993 
    5994 > show #!7 models
    5995 
    5996 > hide #!7 models
    5997 
    5998 > show #!10 models
    5999 
    6000 > hide #!10 models
    6001 
    6002 > show #!7 models
    6003 
    6004 > hide #!7 models
    6005 
    6006 > show #!6 models
    6007 
    6008 > hide #!6 models
    6009 
    6010 > show #!5 models
    6011 
    6012 > hide #!5 models
    6013 
    6014 > show #!5 models
    6015 
    6016 > hide #!5 models
    6017 
    6018 > show #!5 models
    6019 
    6020 > hide #!5 models
    6021 
    6022 > show #!5 models
    6023 
    6024 > hide #!5 models
    6025 
    6026 > show #!5 models
    6027 
    6028 > hide #!5 models
    6029 
    6030 > show #!4 models
    6031 
    6032 > hide #!4 models
    6033 
    6034 > show #!4 models
    6035 
    6036 > hide #!4 models
    6037 
    6038 > show #!3 models
    6039 
    6040 > hide #!3 models
    6041 
    6042 > show #!4 models
    6043 
    6044 > hide #!4 models
    6045 
    6046 > show #!4 models
    6047 
    6048 > hide #!4 models
    6049 
    6050 > show #!5 models
    6051 
    6052 > show #!6 models
    6053 
    6054 > hide #!5 models
    6055 
    6056 > hide #!6 models
    6057 
    6058 > show #!7 models
    6059 
    6060 > show #!10 models
    6061 
    6062 > hide #!7 models
    6063 
    6064 > hide #!10 models
    6065 
    6066 > show #!3 models
    6067 
    6068 > hide #!3 models
    6069 
    6070 > show #!10 models
    6071 
    6072 > hide #!10 models
    6073 
    6074 > show #!3 models
    6075 
    6076 > hide #!3 models
    6077 
    6078 > show #!4 models
    6079 
    6080 > hide #!4 models
    6081 
    6082 > show #!5 models
    6083 
    6084 > hide #!5 models
    6085 
    6086 > show #!6 models
    6087 
    6088 > show #!5 models
    6089 
    6090 > hide #!5 models
    6091 
    6092 > show #!7 models
    6093 
    6094 > hide #!7 models
    6095 
    6096 > show #!7 models
    6097 
    6098 > hide #!6 models
    6099 
    6100 > show #!5 models
    6101 
    6102 > hide #!7 models
    6103 
    6104 > show #!7 models
    6105 
    6106 > hide #!7 models
    6107 
    6108 > show #!7 models
    6109 
    6110 > show #!6 models
    6111 
    6112 > show #!4 models
    6113 
    6114 > hide #!4 models
    6115 
    6116 > hide #!5 models
    6117 
    6118 > hide #!6 models
    6119 
    6120 > show #!6 models
    6121 
    6122 > hide #!6 models
    6123 
    6124 > show #!6 models
    6125 
    6126 > show #!5 models
    6127 
    6128 > show #!4 models
    6129 
    6130 > hide #!5 models
    6131 
    6132 > show #!5 models
    6133 
    6134 > hide #!5 models
    6135 
    6136 > show #!5 models
    6137 
    6138 > hide #!1 models
    6139 
    6140 > hide #!4 models
    6141 
    6142 > hide #!5 models
    6143 
    6144 > hide #!6 models
    6145 
    6146 > select ligand
    6147 
    6148 2572 atoms, 2706 bonds, 70 residues, 7 models selected 
    6149 
    6150 > show sel & #!7 atoms
    6151 
    6152 > select clear
    6153 
    6154 > show #!6 models
    6155 
    6156 > hide #!6 models
    6157 
    6158 > show #!6 models
    6159 
    6160 > hide #!6 models
    6161 
    6162 > hide #!7 models
    6163 
    6164 > show #!7 models
    6165 
    6166 > show #!6 models
    6167 
    6168 > hide #!6 models
    6169 
    6170 > hide #!7 models
    6171 
    6172 > show #!10 models
    6173 
    6174 > hide #!10 models
    6175 
    6176 > show #!3 models
    6177 
    6178 > hide #!3 models
    6179 
    6180 > show #!4 models
    6181 
    6182 > show #!5 models
    6183 
    6184 > hide #!4 models
    6185 
    6186 > show #!6 models
    6187 
    6188 > hide #!5 models
    6189 
    6190 > show #!5 models
    6191 
    6192 > show #!4 models
    6193 
    6194 > show #!3 models
    6195 
    6196 > show #!1 models
    6197 
    6198 > show #!10 models
    6199 
    6200 > hide #!10 models
    6201 
    6202 > hide #!6 models
    6203 
    6204 > hide #!5 models
    6205 
    6206 > hide #!4 models
    6207 
    6208 > hide #!3 models
    6209 
    6210 > hide #!1 models
    6211 
    6212 > show #!6 models
    6213 
    6214 > show #!7 models
    6215 
    6216 > hide #!7 models
    6217 
    6218 > hide #!6 models
    6219 
    6220 > show #!6 models
    6221 
    6222 > show #!5 models
    6223 
    6224 > hide #!5 models
    6225 
    6226 > hide #!6 models
    6227 
    6228 > show #!5 models
    6229 
    6230 > show #!4 models
    6231 
    6232 > hide #!5 models
    6233 
    6234 > hide #!4 models
    6235 
    6236 > show #!5 models
    6237 
    6238 > hide #!5 models
    6239 
    6240 > show #!5 models
    6241 
    6242 > show #!6 models
    6243 
    6244 > hide #!5 models
    6245 
    6246 > show #!7 models
    6247 
    6248 > hide #!6 models
    6249 
    6250 > show #!6 models
    6251 
    6252 > hide #!6 models
    6253 
    6254 > show #!6 models
    6255 
    6256 > show #!5 models
    6257 
    6258 > hide #!5 models
    6259 
    6260 > show #!4 models
    6261 
    6262 > hide #!4 models
    6263 
    6264 > show #!3 models
    6265 
    6266 > hide #!3 models
    6267 
    6268 > show #!10 models
    6269 
    6270 > hide #!10 models
    6271 
    6272 > show #!5 models
    6273 
    6274 > show #!4 models
    6275 
    6276 > show #!3 models
    6277 
    6278 > show #!1 models
    6279 
    6280 > hide #!1 models
    6281 
    6282 > show #!1 models
    6283 
    6284 > hide #!3 models
    6285 
    6286 > show #!3 models
    6287 
    6288 > hide #!1 models
    6289 
    6290 > show #!1 models
    6291 
    6292 > show #!10 models
    6293 
    6294 > morph #7,6,5,4,1,3,10 frames 20
    6295 
    6296 Computed 121 frame morph #2 
    6297 
    6298 > coordset #2 1,121
    6299 
    6300 > hide #!2 models
    6301 
    6302 > show #!7 models
    6303 
    6304 > show #!6 models
    6305 
    6306 > show #!5 models
    6307 
    6308 > show #!4 models
    6309 
    6310 > show #!3 models
    6311 
    6312 > show #!2 models
    6313 
    6314 > show #!1 models
    6315 
    6316 > show #!10 models
    6317 
    6318 > hide surfaces
    6319 
    6320 > show cartoons
    6321 
    6322 > hide atoms
    6323 
    6324 > select ligand
    6325 
    6326 2765 atoms, 2907 bonds, 76 residues, 8 models selected 
    6327 
    6328 > show sel atoms
    6329 
    6330 > select clear
    6331 
    6332 > hide #!10 models
    6333 
    6334 > hide #!7 models
    6335 
    6336 > hide #!6 models
    6337 
    6338 > show #!7 models
    6339 
    6340 > hide #!5 models
    6341 
    6342 > hide #!4 models
    6343 
    6344 > hide #!3 models
    6345 
    6346 > hide #!2 models
    6347 
    6348 > hide #!1 models
    6349 
    6350 > show #!6 models
    6351 
    6352 > show #!5 models
    6353 
    6354 > show #!4 models
    6355 
    6356 > show #!3 models
    6357 
    6358 > show #!2 models
    6359 
    6360 > show #!1 models
    6361 
    6362 > show #!10 models
    6363 
    6364 > hide #!10 models
    6365 
    6366 > hide #!6 models
    6367 
    6368 > hide #!5 models
    6369 
    6370 > hide #!4 models
    6371 
    6372 > hide #!3 models
    6373 
    6374 > hide #!2 models
    6375 
    6376 > hide #!1 models
    6377 
    6378 > show #!6 models
    6379 
    6380 > hide #!6 models
    6381 
    6382 > show #!6 models
    6383 
    6384 > hide #!6 models
    6385 
    6386 > show #!6 models
    6387 
    6388 > hide #!6 models
    6389 
    6390 > show #!6 models
    6391 
    6392 > hide #!6 models
    6393 
    6394 > show #!6 models
    6395 
    6396 > hide #!6 models
    6397 
    6398 > show #!6 models
    6399 
    6400 > hide #!6 models
    6401 
    6402 > show #!10 models
    6403 
    6404 > hide #!7 models
    6405 
    6406 > cartoon style #10 modeHelix tube sides 20
    6407 
    6408 > show #!7 models
    6409 
    6410 > hide #!10 models
    6411 
    6412 > show #!6 models
    6413 
    6414 > hide #!6 models
    6415 
    6416 > show #!6 models
    6417 
    6418 > hide #!6 models
    6419 
    6420 > show #!5 models
    6421 
    6422 > hide #!5 models
    6423 
    6424 > show #!6 models
    6425 
    6426 > hide #!6 models
    6427 
    6428 > show #!6 models
    6429 
    6430 > hide #!6 models
    6431 
    6432 > show #!6 models
    6433 
    6434 > hide #!6 models
    6435 
    6436 > show #!5 models
    6437 
    6438 > show #!4 models
    6439 
    6440 > show #!3 models
    6441 
    6442 > show #!2 models
    6443 
    6444 > show #!1 models
    6445 
    6446 > hide #!1 models
    6447 
    6448 > show #!1 models
    6449 
    6450 > hide #!1 models
    6451 
    6452 > show #!1 models
    6453 
    6454 > hide #!1 models
    6455 
    6456 > show #!1 models
    6457 
    6458 > hide #!1 models
    6459 
    6460 > show #!1 models
    6461 
    6462 > hide #!1 models
    6463 
    6464 > show #!1 models
    6465 
    6466 > hide #!1 models
    6467 
    6468 > morph #7,5,4,3,2 frames 20
    6469 
    6470 Computed 81 frame morph #8 
    6471 
    6472 > coordset #8 1,81
    6473 
    6474 > show #!8 surfaces
    6475 
    6476 > close #8
    6477 
    6478 > close #2
    6479 
    6480 > morph #7,5,4,3,2 frames 20
    6481 
    6482 Computed 61 frame morph #2 
    6483 
    6484 > coordset #2 1,61
    6485 
    6486 > movie record
    6487 
    6488 > movie encode /Users/nicholasferraro/Desktop/movie6.mp4 framerate 25.0
    6489 
    6490 Movie saved to /Users/nicholasferraro/Desktop/movie6.mp4 
    6491  
    6492 
    6493 > morph #7,5,4,3,2 frames 10
    6494 
    6495 Computed 41 frame morph #8 
    6496 
    6497 > coordset #8 1,41
    6498 
    6499 > morph #2,3,4,5,7 frames 10
    6500 
    6501 Traceback (most recent call last): 
    6502 File
    6503 "/private/var/folders/k8/_w4jc1fn05qcb4fz7n3bs2b40000gn/T/AppTranslocation/CCDCC6C4-7682-4DD2-B515-8761D86DEC85/d/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
    6504 packages/chimerax/cmd_line/tool.py", line 319, in execute 
    6505 cmd.run(cmd_text) 
    6506 File
    6507 "/private/var/folders/k8/_w4jc1fn05qcb4fz7n3bs2b40000gn/T/AppTranslocation/CCDCC6C4-7682-4DD2-B515-8761D86DEC85/d/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
    6508 packages/chimerax/core/commands/cli.py", line 3213, in run 
    6509 result = ci.function(session, **kw_args) 
    6510 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ 
    6511 File
    6512 "/private/var/folders/k8/_w4jc1fn05qcb4fz7n3bs2b40000gn/T/AppTranslocation/CCDCC6C4-7682-4DD2-B515-8761D86DEC85/d/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
    6513 packages/chimerax/morph/morph.py", line 84, in morph 
    6514 traj = compute_morph(structures, session.logger, method=method, rate=rate,
    6515 frames=frames, 
    6516 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ 
    6517 File
    6518 "/private/var/folders/k8/_w4jc1fn05qcb4fz7n3bs2b40000gn/T/AppTranslocation/CCDCC6C4-7682-4DD2-B515-8761D86DEC85/d/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
    6519 packages/chimerax/morph/motion.py", line 28, in compute_morph 
    6520 motion.interpolate(res_groups, atom_map, res_interp) 
    6521 File
    6522 "/private/var/folders/k8/_w4jc1fn05qcb4fz7n3bs2b40000gn/T/AppTranslocation/CCDCC6C4-7682-4DD2-B515-8761D86DEC85/d/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
    6523 packages/chimerax/morph/motion.py", line 149, in interpolate 
    6524 coords0[maindices] = matoms.coords 
    6525 ~~~~~~~^^^^^^^^^^^ 
    6526 IndexError: index 17696 is out of bounds for axis 0 with size 17696 
    6527  
    6528 
    6529 Window position QRect(2198,402 600x300) outside any known screen, using
    6530 primary screen 
    6531 
    6532 IndexError: index 17696 is out of bounds for axis 0 with size 17696 
    6533  
    6534 File
    6535 "/private/var/folders/k8/_w4jc1fn05qcb4fz7n3bs2b40000gn/T/AppTranslocation/CCDCC6C4-7682-4DD2-B515-8761D86DEC85/d/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
    6536 packages/chimerax/morph/motion.py", line 149, in interpolate 
    6537 coords0[maindices] = matoms.coords 
    6538 ~~~~~~~^^^^^^^^^^^ 
    6539  
    6540 See log for complete Python traceback. 
    6541  
    6542 
    6543 > morph #2,3,4,5,7 frames 10
    6544 
    6545 Traceback (most recent call last): 
    6546 File
    6547 "/private/var/folders/k8/_w4jc1fn05qcb4fz7n3bs2b40000gn/T/AppTranslocation/CCDCC6C4-7682-4DD2-B515-8761D86DEC85/d/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
    6548 packages/chimerax/cmd_line/tool.py", line 319, in execute 
    6549 cmd.run(cmd_text) 
    6550 File
    6551 "/private/var/folders/k8/_w4jc1fn05qcb4fz7n3bs2b40000gn/T/AppTranslocation/CCDCC6C4-7682-4DD2-B515-8761D86DEC85/d/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
    6552 packages/chimerax/core/commands/cli.py", line 3213, in run 
    6553 result = ci.function(session, **kw_args) 
    6554 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ 
    6555 File
    6556 "/private/var/folders/k8/_w4jc1fn05qcb4fz7n3bs2b40000gn/T/AppTranslocation/CCDCC6C4-7682-4DD2-B515-8761D86DEC85/d/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
    6557 packages/chimerax/morph/morph.py", line 84, in morph 
    6558 traj = compute_morph(structures, session.logger, method=method, rate=rate,
    6559 frames=frames, 
    6560 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ 
    6561 File
    6562 "/private/var/folders/k8/_w4jc1fn05qcb4fz7n3bs2b40000gn/T/AppTranslocation/CCDCC6C4-7682-4DD2-B515-8761D86DEC85/d/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
    6563 packages/chimerax/morph/motion.py", line 28, in compute_morph 
    6564 motion.interpolate(res_groups, atom_map, res_interp) 
    6565 File
    6566 "/private/var/folders/k8/_w4jc1fn05qcb4fz7n3bs2b40000gn/T/AppTranslocation/CCDCC6C4-7682-4DD2-B515-8761D86DEC85/d/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
    6567 packages/chimerax/morph/motion.py", line 149, in interpolate 
    6568 coords0[maindices] = matoms.coords 
    6569 ~~~~~~~^^^^^^^^^^^ 
    6570 IndexError: index 17696 is out of bounds for axis 0 with size 17696 
    6571  
    6572 IndexError: index 17696 is out of bounds for axis 0 with size 17696 
    6573  
    6574 File
    6575 "/private/var/folders/k8/_w4jc1fn05qcb4fz7n3bs2b40000gn/T/AppTranslocation/CCDCC6C4-7682-4DD2-B515-8761D86DEC85/d/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
    6576 packages/chimerax/morph/motion.py", line 149, in interpolate 
    6577 coords0[maindices] = matoms.coords 
    6578 ~~~~~~~^^^^^^^^^^^ 
    6579  
    6580 See log for complete Python traceback. 
    6581  
    6582 
    6583 > morph #2,3,4,5, frames 10
    6584 
    6585 Missing or invalid "structures" argument: only initial part "#2,3,4,5" of atom
    6586 specifier valid 
    6587 
    6588 > morph #2,3,4,5, frames 10
    6589 
    6590 Missing or invalid "structures" argument: only initial part "#2,3,4,5" of atom
    6591 specifier valid 
    6592 
    6593 > morph #2,3,4,5,7 frames 10
    6594 
    6595 Traceback (most recent call last): 
    6596 File
    6597 "/private/var/folders/k8/_w4jc1fn05qcb4fz7n3bs2b40000gn/T/AppTranslocation/CCDCC6C4-7682-4DD2-B515-8761D86DEC85/d/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
    6598 packages/chimerax/cmd_line/tool.py", line 319, in execute 
    6599 cmd.run(cmd_text) 
    6600 File
    6601 "/private/var/folders/k8/_w4jc1fn05qcb4fz7n3bs2b40000gn/T/AppTranslocation/CCDCC6C4-7682-4DD2-B515-8761D86DEC85/d/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
    6602 packages/chimerax/core/commands/cli.py", line 3213, in run 
    6603 result = ci.function(session, **kw_args) 
    6604 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ 
    6605 File
    6606 "/private/var/folders/k8/_w4jc1fn05qcb4fz7n3bs2b40000gn/T/AppTranslocation/CCDCC6C4-7682-4DD2-B515-8761D86DEC85/d/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
    6607 packages/chimerax/morph/morph.py", line 84, in morph 
    6608 traj = compute_morph(structures, session.logger, method=method, rate=rate,
    6609 frames=frames, 
    6610 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ 
    6611 File
    6612 "/private/var/folders/k8/_w4jc1fn05qcb4fz7n3bs2b40000gn/T/AppTranslocation/CCDCC6C4-7682-4DD2-B515-8761D86DEC85/d/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
    6613 packages/chimerax/morph/motion.py", line 28, in compute_morph 
    6614 motion.interpolate(res_groups, atom_map, res_interp) 
    6615 File
    6616 "/private/var/folders/k8/_w4jc1fn05qcb4fz7n3bs2b40000gn/T/AppTranslocation/CCDCC6C4-7682-4DD2-B515-8761D86DEC85/d/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
    6617 packages/chimerax/morph/motion.py", line 149, in interpolate 
    6618 coords0[maindices] = matoms.coords 
    6619 ~~~~~~~^^^^^^^^^^^ 
    6620 IndexError: index 17696 is out of bounds for axis 0 with size 17696 
    6621  
    6622 IndexError: index 17696 is out of bounds for axis 0 with size 17696 
    6623  
    6624 File
    6625 "/private/var/folders/k8/_w4jc1fn05qcb4fz7n3bs2b40000gn/T/AppTranslocation/CCDCC6C4-7682-4DD2-B515-8761D86DEC85/d/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
    6626 packages/chimerax/morph/motion.py", line 149, in interpolate 
    6627 coords0[maindices] = matoms.coords 
    6628 ~~~~~~~^^^^^^^^^^^ 
    6629  
    6630 See log for complete Python traceback. 
    6631  
    6632 
    6633 > hide #!8 models
    6634 
    6635 > morph #2,3,4,5,7 frames 20
    6636 
    6637 Traceback (most recent call last): 
    6638 File
    6639 "/private/var/folders/k8/_w4jc1fn05qcb4fz7n3bs2b40000gn/T/AppTranslocation/CCDCC6C4-7682-4DD2-B515-8761D86DEC85/d/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
    6640 packages/chimerax/cmd_line/tool.py", line 319, in execute 
    6641 cmd.run(cmd_text) 
    6642 File
    6643 "/private/var/folders/k8/_w4jc1fn05qcb4fz7n3bs2b40000gn/T/AppTranslocation/CCDCC6C4-7682-4DD2-B515-8761D86DEC85/d/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
    6644 packages/chimerax/core/commands/cli.py", line 3213, in run 
    6645 result = ci.function(session, **kw_args) 
    6646 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ 
    6647 File
    6648 "/private/var/folders/k8/_w4jc1fn05qcb4fz7n3bs2b40000gn/T/AppTranslocation/CCDCC6C4-7682-4DD2-B515-8761D86DEC85/d/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
    6649 packages/chimerax/morph/morph.py", line 84, in morph 
    6650 traj = compute_morph(structures, session.logger, method=method, rate=rate,
    6651 frames=frames, 
    6652 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ 
    6653 File
    6654 "/private/var/folders/k8/_w4jc1fn05qcb4fz7n3bs2b40000gn/T/AppTranslocation/CCDCC6C4-7682-4DD2-B515-8761D86DEC85/d/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
    6655 packages/chimerax/morph/motion.py", line 28, in compute_morph 
    6656 motion.interpolate(res_groups, atom_map, res_interp) 
    6657 File
    6658 "/private/var/folders/k8/_w4jc1fn05qcb4fz7n3bs2b40000gn/T/AppTranslocation/CCDCC6C4-7682-4DD2-B515-8761D86DEC85/d/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
    6659 packages/chimerax/morph/motion.py", line 149, in interpolate 
    6660 coords0[maindices] = matoms.coords 
    6661 ~~~~~~~^^^^^^^^^^^ 
    6662 IndexError: index 17696 is out of bounds for axis 0 with size 17696 
    6663  
    6664 IndexError: index 17696 is out of bounds for axis 0 with size 17696 
    6665  
    6666 File
    6667 "/private/var/folders/k8/_w4jc1fn05qcb4fz7n3bs2b40000gn/T/AppTranslocation/CCDCC6C4-7682-4DD2-B515-8761D86DEC85/d/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
    6668 packages/chimerax/morph/motion.py", line 149, in interpolate 
    6669 coords0[maindices] = matoms.coords 
    6670 ~~~~~~~^^^^^^^^^^^ 
    6671  
    6672 See log for complete Python traceback. 
    6673  
    6674 
    6675 > morph #2,3 frames 20
    6676 
    6677 Traceback (most recent call last): 
    6678 File
    6679 "/private/var/folders/k8/_w4jc1fn05qcb4fz7n3bs2b40000gn/T/AppTranslocation/CCDCC6C4-7682-4DD2-B515-8761D86DEC85/d/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
    6680 packages/chimerax/cmd_line/tool.py", line 319, in execute 
    6681 cmd.run(cmd_text) 
    6682 File
    6683 "/private/var/folders/k8/_w4jc1fn05qcb4fz7n3bs2b40000gn/T/AppTranslocation/CCDCC6C4-7682-4DD2-B515-8761D86DEC85/d/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
    6684 packages/chimerax/core/commands/cli.py", line 3213, in run 
    6685 result = ci.function(session, **kw_args) 
    6686 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ 
    6687 File
    6688 "/private/var/folders/k8/_w4jc1fn05qcb4fz7n3bs2b40000gn/T/AppTranslocation/CCDCC6C4-7682-4DD2-B515-8761D86DEC85/d/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
    6689 packages/chimerax/morph/morph.py", line 84, in morph 
    6690 traj = compute_morph(structures, session.logger, method=method, rate=rate,
    6691 frames=frames, 
    6692 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ 
    6693 File
    6694 "/private/var/folders/k8/_w4jc1fn05qcb4fz7n3bs2b40000gn/T/AppTranslocation/CCDCC6C4-7682-4DD2-B515-8761D86DEC85/d/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
    6695 packages/chimerax/morph/motion.py", line 28, in compute_morph 
    6696 motion.interpolate(res_groups, atom_map, res_interp) 
    6697 File
    6698 "/private/var/folders/k8/_w4jc1fn05qcb4fz7n3bs2b40000gn/T/AppTranslocation/CCDCC6C4-7682-4DD2-B515-8761D86DEC85/d/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
    6699 packages/chimerax/morph/motion.py", line 149, in interpolate 
    6700 coords0[maindices] = matoms.coords 
    6701 ~~~~~~~^^^^^^^^^^^ 
    6702 IndexError: index 17696 is out of bounds for axis 0 with size 17696 
    6703  
    6704 IndexError: index 17696 is out of bounds for axis 0 with size 17696 
    6705  
    6706 File
    6707 "/private/var/folders/k8/_w4jc1fn05qcb4fz7n3bs2b40000gn/T/AppTranslocation/CCDCC6C4-7682-4DD2-B515-8761D86DEC85/d/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
    6708 packages/chimerax/morph/motion.py", line 149, in interpolate 
    6709 coords0[maindices] = matoms.coords 
    6710 ~~~~~~~^^^^^^^^^^^ 
    6711  
    6712 See log for complete Python traceback. 
    6713  
    6714 
    6715 > close #2
    6716 
    6717 > close #8
    6718 
    6719 > show #!1 models
    6720 
    6721 > show #!3 models
    6722 
    6723 > show #!4 models
    6724 
    6725 > show #!5 models
    6726 
    6727 > show #!6 models
    6728 
    6729 > show #!7 models
    6730 
    6731 > show #!10 models
    6732 
    6733 > morph #2,3,4,5,7 frames 20
    6734 
    6735 Computed 61 frame morph #2 
    6736 
    6737 > coordset #2 1,61
    6738 
    6739 > hide #!1 models
    6740 
    6741 > hide #!6 models
    6742 
    6743 > hide #!10 models
    6744 
    6745 > morph #7,6,5,4,3,2 frames 20
    6746 
    6747 Computed 101 frame morph #8 
    6748 
    6749 > coordset #8 1,101
    6750 
    6751 > morph #7,,5,4,3,2 frames 20
    6752 
    6753 Missing or invalid "structures" argument: only initial part "#7" of atom
    6754 specifier valid 
    6755 
    6756 > morph #7,5,4,3,2 frames 20
    6757 
    6758 Computed 81 frame morph #9 
    6759 
    6760 > coordset #9 1,81
    6761 
    6762 > hide #!8 models
    6763 
    6764 > morph #,5,4,3,2 frames 20
    6765 
    6766 Missing or invalid "structures" argument: invalid structures specifier 
    6767 
    6768 > morph #5,4,3,2 frames 20
    6769 
    6770 Computed 61 frame morph #11 
    6771 
    6772 > coordset #11 1,61
    6773 
    6774 > hide #!9 models
    6775 
    6776 > hide #!11 models
    6777 
    6778 > show #!5 models
    6779 
    6780 Drag select of 9 atoms, 2 residues, 7 bonds 
    6781 
    6782 > select clear
    6783 
    6784 > show #!4 models
    6785 
    6786 > hide #!4 models
    6787 
    6788 > hide #!5 models
    6789 
    6790 > show #!5 models
    6791 
    6792 > hide #!5 models
    6793 
    6794 > show #!4 models
    6795 
    6796 > hide #!4 models
    6797 
    6798 > show #!3 models
    6799 
    6800 > show #!4 models
    6801 
    6802 > hide #!3 models
    6803 
    6804 > show #!3 models
    6805 
    6806 Drag select of 17 residues 
    6807 
    6808 > select clear
    6809 
    6810 > hide #!3 models
    6811 
    6812 > show #!3 models
    6813 
    6814 > hide #!3 models
    6815 
    6816 > show #!3 models
    6817 
    6818 > hide #!3 models
    6819 
    6820 > show #!3 models
    6821 
    6822 > hide #!3 models
    6823 
    6824 > show #!2 models
    6825 
    6826 > hide #!2 models
    6827 
    6828 > close #2
    6829 
    6830 > close #11
    6831 
    6832 > close #9
    6833 
    6834 > close #8
    6835 
    6836 > show #!10 models
    6837 
    6838 > hide #!10 models
    6839 
    6840 > show #!10 models
    6841 
    6842 > hide #!10 models
    6843 
    6844 > show #!7 models
    6845 
    6846 > show #!6 models
    6847 
    6848 > hide #!6 models
    6849 
    6850 > show #!6 models
    6851 
    6852 > hide #!6 models
    6853 
    6854 > show #!6 models
    6855 
    6856 > hide #!6 models
    6857 
    6858 > show #!6 models
    6859 
    6860 > hide #!4 models
    6861 
    6862 > show #!5 models
    6863 
    6864 > hide #!5 models
    6865 
    6866 > show #!5 models
    6867 
    6868 > hide #!6 models
    6869 
    6870 > hide #!7 models
    6871 
    6872 > show #!4 models
    6873 
    6874 > show #!3 models
    6875 
    6876 > show #!1 models
    6877 
    6878 > hide #!1 models
    6879 
    6880 > show #!1 models
    6881 
    6882 > hide #!3 models
    6883 
    6884 > hide #!4 models
    6885 
    6886 > show #!6 models
    6887 
    6888 > show #!7 models
    6889 
    6890 > hide #!7 models
    6891 
    6892 > hide #!5 models
    6893 
    6894 > hide #!1 models
    6895 
    6896 > show #!7 models
    6897 
    6898 > show #!5 models
    6899 
    6900 > show #!1 models
    6901 
    6902 > show #!4 models
    6903 
    6904 > hide #!4 models
    6905 
    6906 > hide #!1 models
    6907 
    6908 > hide #!5 models
    6909 
    6910 > hide #!6 models
    6911 
    6912 > hide #!7 models
    6913 
    6914 > show #!4 models
    6915 
    6916 > hide #!4 models
    6917 
    6918 > show #!5 models
    6919 
    6920 > show #!4 models
    6921 
    6922 > hide #!4 models
    6923 
    6924 > show #!3 models
    6925 
    6926 > hide #!3 models
    6927 
    6928 > show #!1 models
    6929 
    6930 > hide #!1 models
    6931 
    6932 > show #!1 models
    6933 
    6934 > hide #!5 models
    6935 
    6936 > show #!6 models
    6937 
    6938 > hide #!6 models
    6939 
    6940 > show #!6 models
    6941 
    6942 > show #!7 models
    6943 
    6944 > hide #!1 models
    6945 
    6946 > show #!1 models
    6947 
    6948 > show #!5 models
    6949 
    6950 > hide #!6 models
    6951 
    6952 > hide #!7 models
    6953 
    6954 > hide #!1 models
    6955 
    6956 > show #!6 models
    6957 
    6958 > hide #!6 models
    6959 
    6960 > show #!10 models
    6961 
    6962 > hide #!10 models
    6963 
    6964 > show #!4 models
    6965 
    6966 > show #!3 models
    6967 
    6968 > show #!10 models
    6969 
    6970 > morph #6,7,1,5,4,3,10 frames 20
    6971 
    6972 Computed 121 frame morph #2 
    6973 
    6974 > coordset #2 1,121
    6975 
    6976 > select clear
    6977 
    6978 Drag select of 5 residues 
    6979 
    6980 > select clear
    6981 
    6982 > morph #6,7,1,5,4,3,10 frames 10
    6983 
    6984 Computed 61 frame morph #8 
    6985 
    6986 > coordset #8 1,61
    6987 
    6988 > hide #!2 models
    6989 
    6990 > movie record
    6991 
    6992 > movie encode /Users/nicholasferraro/Desktop/movie7.mp4 framerate 25.0
    6993 
    6994 Movie saved to /Users/nicholasferraro/Desktop/movie7.mp4 
    6995  
    6996 
    6997 > hide #!8 models
    6998 
    6999 > show #!6 models
    7000 
    7001 > show #!8 models
    7002 
    7003 > hide #!6 models
    7004 
    7005 > show #!2 models
    7006 
    7007 > hide #!2 models
    7008 
    7009 > show #!2 models
    7010 
    7011 > hide #!2 models
    7012 
    7013 > close #2
    7014 
    7015 > hide #!8 models
    7016 
    7017 > show #!6 models
    7018 
    7019 > show #!7 models
    7020 
    7021 > hide #!6 models
    7022 
    7023 > show #!6 models
    7024 
    7025 > show #!5 models
    7026 
    7027 > hide #!5 models
    7028 
    7029 > show #!1 models
    7030 
    7031 > hide #!1 models
    7032 
    7033 > show #!1 models
    7034 
    7035 > hide #!1 models
    7036 
    7037 > show #!1 models
    7038 
    7039 > hide #!1 models
    7040 
    7041 > show #!1 models
    7042 
    7043 > hide #!6 models
    7044 
    7045 > hide #!1 models
    7046 
    7047 > show #!1 models
    7048 
    7049 > hide #!1 models
    7050 
    7051 > show #!1 models
    7052 
    7053 > hide #!1 models
    7054 
    7055 > show #!1 models
    7056 
    7057 > hide #!7 models
    7058 
    7059 > show #!7 models
    7060 
    7061 > show #!6 models
    7062 
    7063 > morph #1,7,6,5,4,3,10 frames 10
    7064 
    7065 Computed 61 frame morph #2 
    7066 
    7067 > coordset #2 1,61
    7068 
    7069 > hide #!2 models
    7070 
    7071 > show #!1 models
    7072 
    7073 > show #!7 models
    7074 
    7075 > show #!6 models
    7076 
    7077 > hide #!6 models
    7078 
    7079 > show #!6 models
    7080 
    7081 > hide #!6 models
    7082 
    7083 > show #!6 models
    7084 
    7085 > hide #!6 models
    7086 
    7087 > show #!6 models
    7088 
    7089 > hide #!6 models
    7090 
    7091 > show #!6 models
    7092 
    7093 > hide #!6 models
    7094 
    7095 > show #!6 models
    7096 
    7097 > hide #!6 models
    7098 
    7099 > show #!6 models
    7100 
    7101 > hide #!6 models
    7102 
    7103 > show #!6 models
    7104 
    7105 > hide #!6 models
    7106 
    7107 > show #!6 models
    7108 
    7109 > ui tool show Matchmaker
    7110 
    7111 > matchmaker #6/C to #1/C pairing ss
    7112 
    7113 Parameters 
    7114 --- 
    7115 Chain pairing | ss 
    7116 Alignment algorithm | Needleman-Wunsch 
    7117 Similarity matrix | BLOSUM-62 
    7118 SS fraction | 0.3 
    7119 Gap open (HH/SS/other) | 18/18/6 
    7120 Gap extend | 1 
    7121 SS matrix |  |  | H | S | O 
    7122 ---|---|---|--- 
    7123 H | 6 | -9 | -6 
    7124 S |  | 6 | -6 
    7125 O |  |  | 4 
    7126 Iteration cutoff | 2 
    7127  
    7128 Matchmaker J905_AMP-PnP-ATP_F-chain.pdb, chain C (#1) with J921_AMP-PnP-ATP_F-
    7129 chain.pdb, chain C (#6), sequence alignment score = 876.2 
    7130 RMSD between 183 pruned atom pairs is 0.699 angstroms; (across all 185 pairs:
    7131 0.759) 
    7132  
    7133 
    7134 > hide #!6 models
    7135 
    7136 > hide #!1 models
    7137 
    7138 > show #!6 models
    7139 
    7140 > show #!1 models
    7141 
    7142 > hide #!6 models
    7143 
    7144 > hide #!1 models
    7145 
    7146 > show #!1 models
    7147 
    7148 > hide #!1 models
    7149 
    7150 > show #!1 models
    7151 
    7152 > hide #!7 models
    7153 
    7154 > show #!7 models
    7155 
    7156 > show #!6 models
    7157 
    7158 > hide #!6 models
    7159 
    7160 > show #!6 models
    7161 
    7162 > show #!5 models
    7163 
    7164 > hide #!5 models
    7165 
    7166 > show #!5 models
    7167 
    7168 > hide #!5 models
    7169 
    7170 > show #!5 models
    7171 
    7172 > hide #!5 models
    7173 
    7174 > show #!5 models
    7175 
    7176 > hide #!5 models
    7177 
    7178 > ui tool show Matchmaker
    7179 
    7180 > matchmaker #5/G to #1/C pairing ss
    7181 
    7182 Match chain (J909_AMP-PnP-ATP_F-chain.pdb (#5) chain G) not compatible with
    7183 BLOSUM-62 similarity matrix 
    7184 
    7185 > ui tool show Matchmaker
    7186 
    7187 > matchmaker #5/C to #1/C pairing ss
    7188 
    7189 Parameters 
    7190 --- 
    7191 Chain pairing | ss 
    7192 Alignment algorithm | Needleman-Wunsch 
    7193 Similarity matrix | BLOSUM-62 
    7194 SS fraction | 0.3 
    7195 Gap open (HH/SS/other) | 18/18/6 
    7196 Gap extend | 1 
    7197 SS matrix |  |  | H | S | O 
    7198 ---|---|---|--- 
    7199 H | 6 | -9 | -6 
    7200 S |  | 6 | -6 
    7201 O |  |  | 4 
    7202 Iteration cutoff | 2 
    7203  
    7204 Matchmaker J905_AMP-PnP-ATP_F-chain.pdb, chain C (#1) with J909_AMP-PnP-ATP_F-
    7205 chain.pdb, chain C (#5), sequence alignment score = 864.2 
    7206 RMSD between 184 pruned atom pairs is 0.600 angstroms; (across all 185 pairs:
    7207 0.625) 
    7208  
    7209 
    7210 > show #!5 models
    7211 
    7212 > hide #!5 models
    7213 
    7214 > show #!5 models
    7215 
    7216 > hide #!5 models
    7217 
    7218 > show #!5 models
    7219 
    7220 > hide #!5 models
    7221 
    7222 > show #!5 models
    7223 
    7224 > show #!4 models
    7225 
    7226 > show #!3 models
    7227 
    7228 > show #!10 models
    7229 
    7230 > morph #1,7,6,5,4,3,10 frames 10
    7231 
    7232 Computed 61 frame morph #9 
    7233 
    7234 > coordset #9 1,61
    7235 
    7236 > select clear
    7237 
    7238 > ui tool show "Side View"
    7239 
    7240 > hide #!9 models
    7241 
    7242 > show #!1 models
    7243 
    7244 > show #!7 models
    7245 
    7246 > show #!6 models
    7247 
    7248 > show #!5 models
    7249 
    7250 > show #!4 models
    7251 
    7252 > show #!3 models
    7253 
    7254 > hide #!4 models
    7255 
    7256 > hide #!5 models
    7257 
    7258 > hide #!6 models
    7259 
    7260 > hide #!7 models
    7261 
    7262 > show #!7 models
    7263 
    7264 > hide #!3 models
    7265 
    7266 > hide #!1 models
    7267 
    7268 > show #!1 models
    7269 
    7270 > show #!6 models
    7271 
    7272 > hide #!1 models
    7273 
    7274 > hide #!6 models
    7275 
    7276 > show #!6 models
    7277 
    7278 > show #!1 models
    7279 
    7280 > show #!5 models
    7281 
    7282 > show #!4 models
    7283 
    7284 > show #!3 models
    7285 
    7286 > hide #!3 models
    7287 
    7288 > show #!3 models
    7289 
    7290 > hide #!3 models
    7291 
    7292 > hide #!4 models
    7293 
    7294 > show #!4 models
    7295 
    7296 > hide #!4 models
    7297 
    7298 > show #!4 models
    7299 
    7300 > hide #!4 models
    7301 
    7302 > show #!4 models
    7303 
    7304 > hide #!6 models
    7305 
    7306 > show #!6 models
    7307 
    7308 > hide #!4 models
    7309 
    7310 > show #!4 models
    7311 
    7312 > hide #!4 models
    7313 
    7314 > show #!4 models
    7315 
    7316 > show #!3 models
    7317 
    7318 > hide #!3 models
    7319 
    7320 > show #!3 models
    7321 
    7322 > show #!2 models
    7323 
    7324 > hide #!3 models
    7325 
    7326 > hide #!2 models
    7327 
    7328 > show #!2 models
    7329 
    7330 > show #!3 models
    7331 
    7332 > hide #!1 models
    7333 
    7334 > show #!1 models
    7335 
    7336 > hide #!2 models
    7337 
    7338 > show #!2 models
    7339 
    7340 > hide #!1 models
    7341 
    7342 > hide #!2 models
    7343 
    7344 > hide #!4 models
    7345 
    7346 > hide #!5 models
    7347 
    7348 > hide #!6 models
    7349 
    7350 > hide #!7 models
    7351 
    7352 > show #!7 models
    7353 
    7354 > hide #!7 models
    7355 
    7356 > show #!7 models
    7357 
    7358 > hide #!7 models
    7359 
    7360 > show #!7 models
    7361 
    7362 > hide #!3 models
    7363 
    7364 > show #!3 models
    7365 
    7366 > hide #!3 models
    7367 
    7368 > show #!3 models
    7369 
    7370 > hide #!3 models
    7371 
    7372 > hide #!7 models
    7373 
    7374 > show #!7 models
    7375 
    7376 > show #!6 models
    7377 
    7378 > show #!5 models
    7379 
    7380 > show #!4 models
    7381 
    7382 > show #!3 models
    7383 
    7384 > hide #!3 models
    7385 
    7386 > show #!3 models
    7387 
    7388 > show #!2 models
    7389 
    7390 > show #!1 models
    7391 
    7392 > hide #!1 models
    7393 
    7394 > show #!1 models
    7395 
    7396 > hide #!7 models
    7397 
    7398 > hide #!6 models
    7399 
    7400 > hide #!5 models
    7401 
    7402 > hide #!4 models
    7403 
    7404 > hide #!3 models
    7405 
    7406 > hide #!2 models
    7407 
    7408 > hide #!1 models
    7409 
    7410 > show #!7 models
    7411 
    7412 > show #!6 models
    7413 
    7414 > show #!5 models
    7415 
    7416 > hide #!5 models
    7417 
    7418 > show #!5 models
    7419 
    7420 > hide #!6 models
    7421 
    7422 > hide #!7 models
    7423 
    7424 > hide #!5 models
    7425 
    7426 > show #!5 models
    7427 
    7428 > show #!7 models
    7429 
    7430 > show #!6 models
    7431 
    7432 > show #!4 models
    7433 
    7434 > hide #!4 models
    7435 
    7436 > hide #!5 models
    7437 
    7438 > hide #!6 models
    7439 
    7440 > hide #!7 models
    7441 
    7442 > show #!7 models
    7443 
    7444 > show #!6 models
    7445 
    7446 > show #!5 models
    7447 
    7448 > hide #!5 models
    7449 
    7450 > show #!4 models
    7451 
    7452 > hide #!4 models
    7453 
    7454 > show #!4 models
    7455 
    7456 > hide #!4 models
    7457 
    7458 > show #!4 models
    7459 
    7460 > hide #!4 models
    7461 
    7462 > show #!4 models
    7463 
    7464 > hide #!4 models
    7465 
    7466 > show #!4 models
    7467 
    7468 > hide #!4 models
    7469 
    7470 > show #!3 models
    7471 
    7472 > show #!4 models
    7473 
    7474 > hide #!4 models
    7475 
    7476 > show #!2 models
    7477 
    7478 > hide #!2 models
    7479 
    7480 > show #!2 models
    7481 
    7482 > hide #!2 models
    7483 
    7484 > show #!2 models
    7485 
    7486 > show #!4 models
    7487 
    7488 > hide #!4 models
    7489 
    7490 > show #!1 models
    7491 
    7492 > hide #!1 models
    7493 
    7494 > hide #!2 models
    7495 
    7496 > show #!1 models
    7497 
    7498 > show #!2 models
    7499 
    7500 > hide #!3 models
    7501 
    7502 > show #!3 models
    7503 
    7504 > hide #!3 models
    7505 
    7506 > show #!3 models
    7507 
    7508 > hide #!2 models
    7509 
    7510 > hide #!3 models
    7511 
    7512 > show #!3 models
    7513 
    7514 > hide #!1 models
    7515 
    7516 > show #!1 models
    7517 
    7518 > show #!2 models
    7519 
    7520 > show #!4 models
    7521 
    7522 > hide #!4 models
    7523 
    7524 > show #!5 models
    7525 
    7526 > hide #!5 models
    7527 
    7528 > show #!5 models
    7529 
    7530 > hide #!5 models
    7531 
    7532 > show #!4 models
    7533 
    7534 > show #!5 models
    7535 
    7536 > hide #!5 models
    7537 
    7538 > hide #!4 models
    7539 
    7540 > show #!10 models
    7541 
    7542 > hide #!10 models
    7543 
    7544 > show #!10 models
    7545 
    7546 > hide #!10 models
    7547 
    7548 > show #!10 models
    7549 
    7550 > hide #!1 models
    7551 
    7552 > hide #!10 models
    7553 
    7554 > show #!10 models
    7555 
    7556 > hide #!2 models
    7557 
    7558 > hide #!10 models
    7559 
    7560 > show #!10 models
    7561 
    7562 > show #!2 models
    7563 
    7564 > hide #!2 models
    7565 
    7566 > show #!2 models
    7567 
    7568 > hide #!2 models
    7569 
    7570 > show #!2 models
    7571 
    7572 > hide #!2 models
    7573 
    7574 > show #!2 models
    7575 
    7576 > hide #!2 models
    7577 
    7578 > show #!2 models
    7579 
    7580 > hide #!2 models
    7581 
    7582 > close #2
    7583 
    7584 > show #!9 models
    7585 
    7586 > close #8
    7587 
    7588 > hide #!9 models
    7589 
    7590 > hide #!10 models
    7591 
    7592 > show #!10 models
    7593 
    7594 > hide #!10 models
    7595 
    7596 > show #!10 models
    7597 
    7598 > hide #!3 models
    7599 
    7600 > hide #!10 models
    7601 
    7602 > show #!3 models
    7603 
    7604 > show #!10 models
    7605 
    7606 > show #!4 models
    7607 
    7608 > hide #!4 models
    7609 
    7610 > show #!1 models
    7611 
    7612 > hide #!1 models
    7613 
    7614 > hide #!3 models
    7615 
    7616 > show #!1 models
    7617 
    7618 > hide #!1 models
    7619 
    7620 > show #!1 models
    7621 
    7622 > hide #!1 models
    7623 
    7624 > hide #!10 models
    7625 
    7626 > show #!1 models
    7627 
    7628 > show #!10 models
    7629 
    7630 > hide #!1 models
    7631 
    7632 > hide #!10 models
    7633 
    7634 > show #!1 models
    7635 
    7636 > show #!10 models
    7637 
    7638 > show #!3 models
    7639 
    7640 > hide #!3 models
    7641 
    7642 > show #!3 models
    7643 
    7644 > show #!4 models
    7645 
    7646 > hide #!4 models
    7647 
    7648 > show #!5 models
    7649 
    7650 > hide #!5 models
    7651 
    7652 > show #!5 models
    7653 
    7654 > show #!4 models
    7655 
    7656 > hide #!4 models
    7657 
    7658 > show #!4 models
    7659 
    7660 > hide #!4 models
    7661 
    7662 > hide #!3 models
    7663 
    7664 > hide #!1 models
    7665 
    7666 > show #!1 models
    7667 
    7668 > hide #!1 models
    7669 
    7670 > hide #!5 models
    7671 
    7672 > hide #!6 models
    7673 
    7674 > hide #!7 models
    7675 
    7676 > hide #!10 models
    7677 
    7678 > show #!10 models
    7679 
    7680 > show #!7 models
    7681 
    7682 > hide #!7 models
    7683 
    7684 > show #!7 models
    7685 
    7686 > hide #!10 models
    7687 
    7688 > show #!10 models
    7689 
    7690 > hide #!7 models
    7691 
    7692 > show #!7 models
    7693 
    7694 > hide #!7 models
    7695 
    7696 > show #!7 models
    7697 
    7698 > hide #!7 models
    7699 
    7700 > select nucleic-acid
    7701 
    7702 1938 atoms, 2042 bonds, 2 pseudobonds, 60 residues, 9 models selected 
    7703 
    7704 > show sel & #!10 atoms
    7705 
    7706 > select clear
    7707 
    7708 > show #!7 models
    7709 
    7710 > hide #!7 models
    7711 
    7712 > show #!7 models
    7713 
    7714 > hide #!7 models
    7715 
    7716 > show #!6 models
    7717 
    7718 > hide #!6 models
    7719 
    7720 > show #!7 models
    7721 
    7722 > show #!6 models
    7723 
    7724 > show #!5 models
    7725 
    7726 > hide #!5 models
    7727 
    7728 > show #!5 models
    7729 
    7730 > hide #!5 models
    7731 
    7732 > show #!5 models
    7733 
    7734 > show #!4 models
    7735 
    7736 > show #!3 models
    7737 
    7738 > show #!1 models
    7739 
    7740 > hide #!1 models
    7741 
    7742 > show #!1 models
    7743 
    7744 > hide #!1 models
    7745 
    7746 > hide #!3 models
    7747 
    7748 > hide #!4 models
    7749 
    7750 > hide #!5 models
    7751 
    7752 > hide #!6 models
    7753 
    7754 > hide #!7 models
    7755 
    7756 > hide #!10 models
    7757 
    7758 > show #!10 models
    7759 
    7760 > show #!7 models
    7761 
    7762 > hide #!10 models
    7763 
    7764 > show #!6 models
    7765 
    7766 > hide #!6 models
    7767 
    7768 > show #!6 models
    7769 
    7770 > hide #!6 models
    7771 
    7772 > show #!5 models
    7773 
    7774 > hide #!5 models
    7775 
    7776 > show #!5 models
    7777 
    7778 > show #!6 models
    7779 
    7780 > hide #!6 models
    7781 
    7782 > show #!4 models
    7783 
    7784 > hide #!5 models
    7785 
    7786 > show #!5 models
    7787 
    7788 > hide #!5 models
    7789 
    7790 > show #!5 models
    7791 
    7792 > hide #!5 models
    7793 
    7794 > hide #!7 models
    7795 
    7796 > show #!7 models
    7797 
    7798 > hide #!4 models
    7799 
    7800 > show #!4 models
    7801 
    7802 > show #!5 models
    7803 
    7804 > hide #!5 models
    7805 
    7806 > show #!5 models
    7807 
    7808 > hide #!5 models
    7809 
    7810 > show #!5 models
    7811 
    7812 > show #!6 models
    7813 
    7814 > hide #!6 models
    7815 
    7816 > hide #!5 models
    7817 
    7818 > show #!5 models
    7819 
    7820 > show #!1 models
    7821 
    7822 > hide #!1 models
    7823 
    7824 > show #!1 models
    7825 
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    7827 
    7828 > show #!3 models
    7829 
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    7831 
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    7833 
    7834 > hide #!4 models
    7835 
    7836 > hide #!5 models
    7837 
    7838 > hide #!7 models
    7839 
    7840 > show #!4 models
    7841 
    7842 > show #!10 models
    7843 
    7844 > show #!7 models
    7845 
    7846 > hide #!7 models
    7847 
    7848 > hide #!10 models
    7849 
    7850 > show #!10 models
    7851 
    7852 > hide #!10 models
    7853 
    7854 > show #!10 models
    7855 
    7856 > hide #!10 models
    7857 
    7858 > show #!10 models
    7859 
    7860 > hide #!3 models
    7861 
    7862 > show #!3 models
    7863 
    7864 > hide #!3 models
    7865 
    7866 > show #!3 models
    7867 
    7868 > hide #!3 models
    7869 
    7870 > show #!3 models
    7871 
    7872 > hide #!3 models
    7873 
    7874 > show #!3 models
    7875 
    7876 > hide #!3 models
    7877 
    7878 > hide #!4 models
    7879 
    7880 > show #!3 models
    7881 
    7882 > hide #!3 models
    7883 
    7884 > show #!3 models
    7885 
    7886 > hide #!3 models
    7887 
    7888 > show #!3 models
    7889 
    7890 > hide #!3 models
    7891 
    7892 > show #!3 models
    7893 
    7894 > hide #!10 models
    7895 
    7896 > show #!10 models
    7897 
    7898 > hide #!10 models
    7899 
    7900 > show #!10 models
    7901 
    7902 > hide #!10 models
    7903 
    7904 > show #!10 models
    7905 
    7906 > show #!1 models
    7907 
    7908 > hide #!1 models
    7909 
    7910 > show #!4 models
    7911 
    7912 > hide #!4 models
    7913 
    7914 > show #!4 models
    7915 
    7916 > hide #!4 models
    7917 
    7918 > show #!4 models
    7919 
    7920 > hide #!4 models
    7921 
    7922 > show #!4 models
    7923 
    7924 > hide #!4 models
    7925 
    7926 > hide #!3 models
    7927 
    7928 > show #!4 models
    7929 
    7930 > hide #!10 models
    7931 
    7932 > show #!10 models
    7933 
    7934 > hide #!10 models
    7935 
    7936 > show #!10 models
    7937 
    7938 > hide #!10 models
    7939 
    7940 > show #!10 models
    7941 
    7942 > hide #!10 models
    7943 
    7944 > show #!10 models
    7945 
    7946 > hide #!10 models
    7947 
    7948 > show #!10 models
    7949 
    7950 > show #!3 models
    7951 
    7952 > hide #!3 models
    7953 
    7954 > hide #!4 models
    7955 
    7956 > show #!3 models
    7957 
    7958 > hide #!10 models
    7959 
    7960 > show #!4 models
    7961 
    7962 > show #!10 models
    7963 
    7964 > hide #!3 models
    7965 
    7966 > hide #!4 models
    7967 
    7968 > show #!3 models
    7969 
    7970 > show #!4 models
    7971 
    7972 > hide #!4 models
    7973 
    7974 > show #!4 models
    7975 
    7976 > hide #!4 models
    7977 
    7978 > show #!4 models
    7979 
    7980 > hide #!4 models
    7981 
    7982 > show #!4 models
    7983 
    7984 > hide #!4 models
    7985 
    7986 > show #!4 models
    7987 
    7988 > hide #!4 models
    7989 
    7990 > show #!4 models
    7991 
    7992 > hide #!4 models
    7993 
    7994 > show #!4 models
    7995 
    7996 > hide #!4 models
    7997 
    7998 > show #!4 models
    7999 
    8000 > hide #!4 models
    8001 
    8002 > show #!4 models
    8003 
    8004 > hide #!4 models
    8005 
    8006 > show #!4 models
    8007 
    8008 > hide #!4 models
    8009 
    8010 > show #!4 models
    8011 
    8012 > show #!7 models
    8013 
    8014 > hide #!7 models
    8015 
    8016 > show #!7 models
    8017 
    8018 > hide #!7 models
    8019 
    8020 > show #!6 models
    8021 
    8022 > hide #!6 models
    8023 
    8024 > show #!5 models
    8025 
    8026 > hide #!5 models
    8027 
    8028 > show #!5 models
    8029 
    8030 > hide #!5 models
    8031 
    8032 > show #!5 models
    8033 
    8034 > hide #!5 models
    8035 
    8036 > show #!1 models
    8037 
    8038 > hide #!1 models
    8039 
    8040 > hide #!3 models
    8041 
    8042 > hide #!4 models
    8043 
    8044 > show #!1 models
    8045 
    8046 > hide #!1 models
    8047 
    8048 > hide #!10 models
    8049 
    8050 > show #!1 models
    8051 
    8052 > show #!7 models
    8053 
    8054 > hide #!7 models
    8055 
    8056 > show #!7 models
    8057 
    8058 > show #!6 models
    8059 
    8060 > morph #1,7,6,5,3,4,10 frames 10
    8061 
    8062 Computed 61 frame morph #2 
    8063 
    8064 > coordset #2 1,61
    8065 
    8066 > show #!1 models
    8067 
    8068 > hide #!2 models
    8069 
    8070 > show #!7 models
    8071 
    8072 > hide #!7 models
    8073 
    8074 > show #!7 models
    8075 
    8076 > hide #!7 models
    8077 
    8078 > show #!7 models
    8079 
    8080 > hide #!1 models
    8081 
    8082 > show #!1 models
    8083 
    8084 > show #!6 models
    8085 
    8086 > hide #!6 models
    8087 
    8088 > show #!6 models
    8089 
    8090 > hide #!6 models
    8091 
    8092 > show #!6 models
    8093 
    8094 > hide #!7 models
    8095 
    8096 > hide #!1 models
    8097 
    8098 > show #!7 models
    8099 
    8100 > show #!1 models
    8101 
    8102 > show #!5 models
    8103 
    8104 > hide #!5 models
    8105 
    8106 > show #!3 models
    8107 
    8108 > show #!5 models
    8109 
    8110 > hide #!5 models
    8111 
    8112 > show #!4 models
    8113 
    8114 > hide #!4 models
    8115 
    8116 > show #!5 models
    8117 
    8118 > hide #!5 models
    8119 
    8120 > show #!10 models
    8121 
    8122 > show #!5 models
    8123 
    8124 > show #!4 models
    8125 
    8126 > hide #!4 models
    8127 
    8128 > hide #!10 models
    8129 
    8130 > hide #!7 models
    8131 
    8132 > hide #!6 models
    8133 
    8134 > hide #!5 models
    8135 
    8136 > hide #!3 models
    8137 
    8138 > hide #!1 models
    8139 
    8140 > show #!5 models
    8141 
    8142 > show #!4 models
    8143 
    8144 > hide #!4 models
    8145 
    8146 > hide #!5 models
    8147 
    8148 > show #!10 models
    8149 
    8150 > show #!5 models
    8151 
    8152 > show #!4 models
    8153 
    8154 > hide #!5 models
    8155 
    8156 > show #!5 models
    8157 
    8158 > hide #!5 models
    8159 
    8160 > hide #!4 models
    8161 
    8162 > hide #!10 models
    8163 
    8164 > show #!7 models
    8165 
    8166 > show #!6 models
    8167 
    8168 > show #!1 models
    8169 
    8170 > hide #!1 models
    8171 
    8172 > show #!1 models
    8173 
    8174 > hide #!1 models
    8175 
    8176 > hide #!6 models
    8177 
    8178 > show #!1 models
    8179 
    8180 > hide #!1 models
    8181 
    8182 > hide #!7 models
    8183 
    8184 > show #!1 models
    8185 
    8186 > show #!7 models
    8187 
    8188 > show #!6 models
    8189 
    8190 > show #!3 models
    8191 
    8192 > show #!10 models
    8193 
    8194 > show #!5 models
    8195 
    8196 > hide #!5 models
    8197 
    8198 > show #!5 models
    8199 
    8200 > show #!4 models
    8201 
    8202 > hide #!5 models
    8203 
    8204 > show #!5 models
    8205 
    8206 > hide #!5 models
    8207 
    8208 > show #!5 models
    8209 
    8210 > hide #!5 models
    8211 
    8212 > show #!5 models
    8213 
    8214 > hide #!4 models
    8215 
    8216 > show #!4 models
    8217 
    8218 > hide #!5 models
    8219 
    8220 > show #!5 models
    8221 
    8222 > morph #1,7,6,3,10,5,4 frames 10
    8223 
    8224 Computed 61 frame morph #8 
    8225 
    8226 > coordset #8 1,61
     1863[deleted to fit within ticket limits]
    82271864
    82281865> morph #1,7,6,3,10,5,4 frames 7