<html><head></head><body><div style="color:#000; background-color:#fff; font-family:HelveticaNeue, Helvetica Neue, Helvetica, Arial, Lucida Grande, sans-serif;font-size:16px"><div id="yui_3_16_0_ym19_1_1462039161566_3466">Dear Elaine,</div><div id="yui_3_16_0_ym19_1_1462039161566_3465"><br></div><div id="yui_3_16_0_ym19_1_1462039161566_3460" dir="ltr">thank you for your reply! It does seem to work on my Mac. I have no idea why I had so many problems on Friday on my Linux workstation (chimera always kept complaining something about wrong domains... Perhaps I will try this again next week on Linux to see if it works there). Thank you and sorry for all the fuss!</div><div id="yui_3_16_0_ym19_1_1462039161566_3461" dir="ltr"><br></div><div id="yui_3_16_0_ym19_1_1462039161566_3467" dir="ltr">Sincerely yours,</div><div id="yui_3_16_0_ym19_1_1462039161566_3526" dir="ltr"><br></div><div id="yui_3_16_0_ym19_1_1462039161566_3527" dir="ltr">Vis</div><div id="yui_3_16_0_ym19_1_1462039161566_3529" dir="ltr">@ Vilnius University<br></div><div id="yui_3_16_0_ym19_1_1462039161566_3587"><span></span></div><div id="yui_3_16_0_ym19_1_1462039161566_3586" class="qtdSeparateBR"><br><br></div><div style="display: block;" id="yui_3_16_0_ym19_1_1462039161566_3556" class="yahoo_quoted">  <div id="yui_3_16_0_ym19_1_1462039161566_3555" style="font-family: HelveticaNeue, Helvetica Neue, Helvetica, Arial, Lucida Grande, sans-serif; font-size: 16px;"> <div id="yui_3_16_0_ym19_1_1462039161566_3554" style="font-family: HelveticaNeue, Helvetica Neue, Helvetica, Arial, Lucida Grande, sans-serif; font-size: 16px;"> <div id="yui_3_16_0_ym19_1_1462039161566_3579" dir="ltr"> <font id="yui_3_16_0_ym19_1_1462039161566_3585" face="Arial" size="2"> <hr size="1"> <b><span style="font-weight:bold;">From:</span></b> Elaine Meng &lt;meng@cgl.ucsf.edu&gt;<br> <b><span style="font-weight: bold;">To:</span></b> Visvaldas K. &lt;coyote_v2002@yahoo.com&gt; <br><b><span style="font-weight: bold;">Cc:</span></b> "chimera-users@cgl.ucsf.edu Mailing List" &lt;chimera-users@cgl.ucsf.edu&gt;<br> <b><span style="font-weight: bold;">Sent:</span></b> Friday, April 29, 2016 11:46 PM<br> <b><span style="font-weight: bold;">Subject:</span></b> Re: [Chimera-users] Manually adjusting alignment<br> </font> </div> <div id="yui_3_16_0_ym19_1_1462039161566_3553" class="y_msg_container"><br>P.S. you don’t even need to look in the User’s Guide, you can show a table of the editing keys from the sequence window menu:&nbsp; Edit… Show Editing Keys<br clear="none"><br clear="none">Elaine<br clear="none"><br clear="none">On Apr 29, 2016, at 8:11 AM, Elaine Meng &lt;<a shape="rect" ymailto="mailto:meng@cgl.ucsf.edu" href="mailto:meng@cgl.ucsf.edu">meng@cgl.ucsf.edu</a>&gt; wrote:<br clear="none"><br clear="none">&gt; Hi Vis Kairys,<br clear="none">&gt; It sounds like the step you are missing is first making the stuff you want to move the “active region.”&nbsp; You would do that by dragging a box around it with the mouse, or if you had already dragged a box but it was no longer active, clicking on it to make it active again (shown with dashed outline).&nbsp; Then the various editing key combinations will move the residues in that box.<br clear="none">&gt; <br clear="none">&gt; So the steps are:&nbsp; drag box around the residues you want to move (the “RF”), Ctrl-left arrow to move it left<br clear="none">&gt; <br clear="none">&gt; Multalign Viewer manpage:<br clear="none">&gt; &lt;<a id="yui_3_16_0_ym19_1_1462039161566_3578" shape="rect" href="http://www.rbvi.ucsf.edu/chimera/docs/ContributedSoftware/multalignviewer/framemav.html" target="_blank">http://www.rbvi.ucsf.edu/chimera/docs/ContributedSoftware/multalignviewer/framemav.html</a>&gt;<br clear="none">&gt; … explanation of active region<br clear="none">&gt; <a shape="rect" href="http://www.rbvi.ucsf.edu/chimera/docs/ContributedSoftware/multalignviewer/multalignviewer.html#activeregion" target="_blank">http://www.rbvi.ucsf.edu/chimera/docs/ContributedSoftware/multalignviewer/multalignviewer.html#activeregion</a>&gt;<br clear="none">&gt; … editing keys<br clear="none">&gt; &lt;<a id="yui_3_16_0_ym19_1_1462039161566_3576" shape="rect" href="http://www.rbvi.ucsf.edu/chimera/docs/ContributedSoftware/multalignviewer/multalignviewer.html#editing" target="_blank">http://www.rbvi.ucsf.edu/chimera/docs/ContributedSoftware/multalignviewer/multalignviewer.html#editing</a>&gt;<br clear="none">&gt; <br clear="none">&gt; I hope this helps,<br clear="none">&gt; Elaine<br clear="none">&gt; -----<br clear="none">&gt; Elaine C. Meng, Ph.D.&nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp;  <br clear="none">&gt; UCSF Computer Graphics Lab (Chimera team) and Babbitt Lab<br clear="none">&gt; Department of Pharmaceutical Chemistry<br clear="none">&gt; University of California, San Francisco<br clear="none">&gt; <br clear="none">&gt; On Apr 29, 2016, at 2:07 AM, Visvaldas K. &lt;<a shape="rect" ymailto="mailto:coyote_v2002@yahoo.com" href="mailto:coyote_v2002@yahoo.com">coyote_v2002@yahoo.com</a>&gt; wrote:<br clear="none">&gt; <br clear="none">&gt;&gt; Dear All,<br clear="none">&gt;&gt; <br clear="none">&gt;&gt; I wasn't able to adjust alignment in the Alignment window, and search did not find an answer (because I get great number of false negatives)...<br clear="none">&gt;&gt; I tried shift-arrow, ctrl-shif-arrow and many times but only once the region moved "by accident", and I wasn't able to <br clear="none">&gt;&gt; repeat this feat. <br clear="none">&gt;&gt; <br clear="none">&gt;&gt; To simplify the task, let's say I have in the alignment window:<br clear="none">&gt;&gt; <br clear="none">&gt;&gt; seqA NQDF.RFRD<br clear="none">&gt;&gt; seqB MKTFIEHKD<br clear="none">&gt;&gt; <br clear="none">&gt;&gt; I want to move "RF" by one residue to the left so that the top part becomes<br clear="none">&gt;&gt; <br clear="none">&gt;&gt; NQDFRF.RD<br clear="none">&gt;&gt; <br clear="none">&gt;&gt; What would be the sequence of keys, clicks/drags and so on to do that <br clear="none">&gt;&gt; (also, how is the active region which is ready to move signified: green, green in a dashed frame, or perhaps white dashed frame)?<br clear="none">&gt;&gt; <br clear="none">&gt;&gt; Sincerely yours,<br clear="none">&gt;&gt; <br clear="none">&gt;&gt; Vis Kairys<br clear="none">&gt;&gt; <br clear="none">&gt;&gt; _______________________________________________<br clear="none">&gt;&gt; Chimera-users mailing list: <a shape="rect" ymailto="mailto:Chimera-users@cgl.ucsf.edu" href="mailto:Chimera-users@cgl.ucsf.edu">Chimera-users@cgl.ucsf.edu</a><br clear="none">&gt;&gt; Manage subscription: <a shape="rect" href="http://plato.cgl.ucsf.edu/mailman/listinfo/chimera-users" target="_blank">http://plato.cgl.ucsf.edu/mailman/listinfo/chimera-users</a><div class="yqt7509110280" id="yqtfd96801"><br clear="none">&gt; <br clear="none">&gt; <br clear="none">&gt; _______________________________________________<br clear="none">&gt; Chimera-users mailing list: <a shape="rect" ymailto="mailto:Chimera-users@cgl.ucsf.edu" href="mailto:Chimera-users@cgl.ucsf.edu">Chimera-users@cgl.ucsf.edu</a><br clear="none">&gt; Manage subscription: <a shape="rect" href="http://plato.cgl.ucsf.edu/mailman/listinfo/chimera-users" target="_blank">http://plato.cgl.ucsf.edu/mailman/listinfo/chimera-users</a><br clear="none">&gt; <br clear="none"></div><br><br></div> </div> </div>  </div></div></body></html>