<div dir="ltr">Thank you so much, Elaine! I was able to generate a surface model with molmap, but was wondering how that was different from using the surface command?<div><br></div><div>Thank you,</div><div><br></div><div>Meg</div></div><br><div class="gmail_quote"><div dir="ltr" class="gmail_attr">On Thu, Jan 24, 2019 at 6:52 PM Elaine Meng <<a href="mailto:meng@cgl.ucsf.edu">meng@cgl.ucsf.edu</a>> wrote:<br></div><blockquote class="gmail_quote" style="margin:0px 0px 0px 0.8ex;border-left:1px solid rgb(204,204,204);padding-left:1ex">Hello Meg,<br>
Please see the “workarounds for surface failures” page — I suggest #3 in that page, using the command “molmap”:<br>
<<a href="http://www.rbvi.ucsf.edu/chimera/docs/UsersGuide/surfprobs.html" rel="noreferrer" target="_blank">http://www.rbvi.ucsf.edu/chimera/docs/UsersGuide/surfprobs.html</a>><br>
<br>
… or using ChimeraX instead of Chimera to show the molecular surface, as it uses a more robust calculation method:<br>
<<a href="http://www.rbvi.ucsf.edu/chimerax/" rel="noreferrer" target="_blank">http://www.rbvi.ucsf.edu/chimerax/</a>><br>
<<a href="http://www.rbvi.ucsf.edu/chimerax/download.html" rel="noreferrer" target="_blank">http://www.rbvi.ucsf.edu/chimerax/download.html</a>><br>
<br>
…ChimeraX “surface” command documentation:<br>
<<a href="http://rbvi.ucsf.edu/chimerax/docs/user/commands/surface.html" rel="noreferrer" target="_blank">http://rbvi.ucsf.edu/chimerax/docs/user/commands/surface.html</a>><br>
<br>
I hope this helps,<br>
Elaine<br>
-----<br>
Elaine C. Meng, Ph.D.<br>
UCSF Chimera(X) team<br>
Department of Pharmaceutical Chemistry<br>
University of California, San Francisco<br>
<br>
> On Jan 24, 2019, at 2:21 PM, Megan Yung <<a href="mailto:my449@georgetown.edu" target="_blank">my449@georgetown.edu</a>> wrote:<br>
> <br>
> Hello,<br>
> <br>
> I'm having some trouble generating surface models of large antibodies for an urgent project. I keep getting the mscalc return code 5 error message. I read through the forums and it seems that using the split command is the way to go, but I would not like to split this antibody. I'm trying to get a full rendition of the surface model of the antibody so that it is possible to 3D print the antibody. Can you please let me know if that would be possible? The pdb files of the 4 antibodies are attached.<br>
> <br>
> Thank you very much,<br>
> <br>
> Meg<br>
> <amgen pdb files.zip>_______________________________________________<br>
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</blockquote></div>