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Re: [PyMOL] morph issues
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From: harold s. <h.a...@gm...> - 2016-04-26 11:21:42
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I ask because if I use the command "remove (not alt “”+A)” every atom is erased from the session. > On Apr 26, 2016, at 6:16 AM, harold steinberg <h.a...@gm...> wrote: > > Hi Annemarie, > > Thank you for the answer. Do you know the command to remove the alternative conformation? > > >> On Apr 26, 2016, at 4:31 AM, Honegger Annemarie <hon...@bi...> wrote: >> >> Hi Adam >> >> This additional letter means that you have an alternative conformation for the atom, therefore you do not have a 1:1 correspondence between the >> atoms in the two endpoints of the morph. If you eliminate the alternative conformations (remove (not alt “”+A)) or restrict the selection to those atoms, the morph should work. >> >> best regards >> >> Annemarie >> _______________________________ >> >> Dr. Annemarie Honegger PhD >> Department >> of Biochemistry >> Zürich University >> Winterthurerstrasse 190 >> CH-8057 Zürich >> Switzerland >> >> e-Mail: hon...@bi... >> >> websites >> http://www.bioc.uzh.ch/plueckthun >> http://www.bioc.uzh.ch/plueckthun/antibody >> http://www.bioc.uzh.ch/plueckthun/nanowelt >> >> >> >> >> >>> >>> >>> Message: 6 >>> Date: Mon, 25 Apr 2016 20:54:01 -0500 >>> From: harold steinberg <h.a...@gm...> >>> Subject: [PyMOL] morph issues >>> To: pymol-users <pym...@li...> >>> Message-ID: <0E8...@gm...> >>> Content-Type: text/plain; charset="utf-8" >>> >>> Hi all, >>> >>> I need to generate a morph from 3J5R to 3J5Q. When I load both files and generate the morph, it?s all messed up. When I generate a morph of other structures it works just fine. >>> >>> In the structures that do not morph correctly a sample selection is: >>> /3j5r/A/B/ILE`573/CD1 >>> /3j5q/C/E/ILE`573/CD1 >>> >>> Notice that these files have an extra letter (?A? and ?C? before the chain identifier). >>> >>> In files that the morph does work this letter is missing (it?s a blank space): >>> /3lut//D/GLY`338/CA >>> >>> Is that what is messing up the morph? >>> >>> >>> H. Adam Steinberg >>> 7904 Bowman Rd >>> Lodi, WI 53555 >>> 608/592-2366 >>> >>> -------------- next part -------------- >>> An HTML attachment was scrubbed... >>> >>> ------------------------------ >>> >>> ------------------------------------------------------------------------------ >>> Find and fix application performance issues faster with Applications Manager >>> Applications Manager provides deep performance insights into multiple tiers of >>> your business applications. It resolves application problems quickly and >>> reduces your MTTR. Get your free trial! >>> https://ad.doubleclick.net/ddm/clk/302982198;130105516;z >>> >>> ------------------------------ >>> >>> _______________________________________________ >>> PyMOL-users mailing list >>> PyM...@li... >>> https://lists.sourceforge.net/lists/listinfo/pymol-users >>> >>> >>> End of PyMOL-users Digest, Vol 119, Issue 16 >>> ******************************************** >> >> >> ------------------------------------------------------------------------------ >> Find and fix application performance issues faster with Applications Manager >> Applications Manager provides deep performance insights into multiple tiers of >> your business applications. It resolves application problems quickly and >> reduces your MTTR. Get your free trial! >> https://ad.doubleclick.net/ddm/clk/302982198;130105516;z >> _______________________________________________ >> PyMOL-users mailing list (PyM...@li...) >> Info Page: https://lists.sourceforge.net/lists/listinfo/pymol-users >> Archives: http://www.mail-archive.com/pym...@li... > > H. Adam Steinberg > 7904 Bowman Rd > Lodi, WI 53555 > 608/592-2366 > H. Adam Steinberg 7904 Bowman Rd Lodi, WI 53555 608/592-2366 |
