<div><font color="#231f20" face="CMR10"><span style="font-size: 13.3333px;">Hi,</span></font></div><div><span style="font-family: CMR10; font-size: 9pt; color: rgb(35, 31, 32);"><br></span></div><div><span style="font-family: CMR10; font-size: 9pt; color: rgb(35, 31, 32);">Therefore, we used UCSF Chimera to have a map's smmetry axes (approximately) parallel to the XYZ axes. The procedure followed by the relion tutorial we used for that was to<br><span style="font-size: 9pt;">read in <span style="font-family: CMTT10; font-size: 9pt;">InitialModel/symC1/run_it003_class001.mrc<span style="font-family: CMR10; font-size: 9pt;">; use the <span style="font-family: CMTT10; font-size: 9pt;">duplicate<br><span style="font-family: CMR10; font-size: 9pt;">option under the <span style="font-family: CMTT10; font-size: 9pt;">File <span style="font-family: CMR10; font-size: 9pt;">menu of the <span style="font-family: CMTT10; font-size: 9pt;">Volume viewer<span style="font-family: CMR10; font-size: 9pt;">. Then to deactivate map<br><span style="font-size: 9pt;">#1 on the <span style="font-family: CMTT10; font-size: 9pt;">Model Panel<span style="font-family: CMR10; font-size: 9pt;">; rotate map #0 to have it¡¯s symmetry axis more or<br><span style="font-size: 9pt;">less parallel to the XYZ axes; and then to use in the <span style="font-family: CMTT10; font-size: 9pt;">Command Line <span style="font-family: CMR10; font-size: 9pt;">entry field:<br><span style="font-family: CMTT10; font-size: 9pt;">run_it003_class001.mrc<span style="font-family: CMR10; font-size: 9pt;">; and save this model in the <span style="font-family: CMTT10; font-size: 9pt;">InitialModel/symC1/<br><span style="font-family: CMR10; font-size: 9pt;">directory with the name <span style="font-family: CMTT10; font-size: 9pt;">inimodel.mrc</span></span></span></span></span></span><br style="line-height: normal; text-align: -webkit-auto; text-size-adjust: auto;"></span></span></span></span></span></span></span></span></span></span></span></span></span></span></span></div><div><span style="font-family: CMR10; font-size: 9pt; color: rgb(35, 31, 32);"><span style="font-size: 9pt;"><span style="font-family: CMTT10; font-size: 9pt;"><span style="font-family: CMR10; font-size: 9pt;"><span style="font-family: CMTT10; font-size: 9pt;"><span style="font-family: CMR10; font-size: 9pt;"><span style="font-family: CMTT10; font-size: 9pt;"><span style="font-family: CMR10; font-size: 9pt;"><span style="font-family: CMTT10; font-size: 9pt;"><span style="font-family: CMR10; font-size: 9pt;"><span style="font-size: 9pt;"><span style="font-family: CMTT10; font-size: 9pt;"><span style="font-family: CMR10; font-size: 9pt;"><span style="font-size: 9pt;"><span style="font-family: CMTT10; font-size: 9pt;"><span style="font-family: CMR10; font-size: 9pt;"><span style="font-family: CMTT10; font-size: 9pt;"><span style="font-family: CMR10; font-size: 9pt;"><span style="font-family: CMTT10; font-size: 9pt;"><span style="font-family: CMR10; font-size: 9pt;"><span style="font-family: CMTT10; font-size: 9pt;"><br></span></span></span></span></span></span></span></span></span></span></span></span></span></span></span></span></span></span></span></span></span></div><div><span style="font-family: CMR10; font-size: 9pt; color: rgb(35, 31, 32);"><span style="font-size: 9pt;"><span style="font-family: CMTT10; font-size: 9pt;"><span style="font-family: CMR10; font-size: 9pt;"><span style="font-family: CMTT10; font-size: 9pt;"><span style="font-family: CMR10; font-size: 9pt;"><span style="font-family: CMTT10; font-size: 9pt;"><span style="font-family: CMR10; font-size: 9pt;"><span style="font-family: CMTT10; font-size: 9pt;"><span style="font-family: CMR10; font-size: 9pt;"><span style="font-size: 9pt;"><span style="font-family: CMTT10; font-size: 9pt;"><span style="font-family: CMR10; font-size: 9pt;"><span style="font-size: 9pt;"><span style="font-family: CMTT10; font-size: 9pt;"><span style="font-family: CMR10; font-size: 9pt;"><span style="font-family: CMTT10; font-size: 9pt;"><span style="font-family: CMR10; font-size: 9pt;"><span style="font-family: CMTT10; font-size: 9pt;"><span style="font-family: CMR10; font-size: 9pt;"><span style="font-family: CMTT10; font-size: 9pt;">I have done as the above tutorial in relion, but the saved </span></span></span></span></span></span></span></span></span></span></span></span></span></span></span></span></span></span></span></span></span><span style="color: rgb(35, 31, 32); font-family: CMTT10; font-size: 13.3333px;">inimodel.mrc file does not change its position or  orientation at all. So, my question is what commend can save a map after rotating or transforming its  x,y,z </span><a target="_blank" hidefocus="true" href="http://www.baidu.com/link?url=qYERQ2UKgxGZS6KidkUF0DtewZ20Ij7lK35DN7qYXOfua7Dn9C7Y286u4AbgvfijusRK5HLhBL5ID_XvcItvE6x9d22khmtO9eEkkKhrQuu" style="color: rgb(51, 51, 51); font-size: 13px; font-family: arial;">coordinate</a> ? What is the procedures to do so ?</div><div><br></div><div><br></div><div>                                                                                               Thanks</div><div><br></div><div>                                                                                                 Dashuai</div>