[Chimera-users] Visualizing SARS-CoV-2 spike protein

Tom Goddard goddard at sonic.net
Mon Apr 20 09:03:55 PDT 2020

Hi Chun-Nan,

  Use our newer program ChimeraX.  It has a new surface calculation code that never fails.  Also try full or soft lighting in the toolbar to get much nicer depth perception than Chimera.  Surface calculation often fails in Chimera for large structures especially on Windows.


> On Apr 20, 2020, at 8:08 AM, Chun-Nan Chen <chunnan.chen at singlecelltechnology.com> wrote:
> Hello,
> I am trying to visualize the SARS-CoV-2 spike protein, which is a trimer (PDB no. 6CRZ).  I wish to surface chain B, which is in an “up” conformation) but it kept giving me an error message.  I tried the “split” command and other solutions without success.  I could surface just the B chain but I really want to surface all 3 chains and color the RBD.
> Could anyone help me with this issue?
> Thank you,
> Chun-Nan Chen, Ph.D.
> Single Cell Technology, Inc.
> 6280 San Ignacio Ave. Suite E
> San Jose, CA  95119
> Mobile: (408) 769-2171
> Email: chunnan.chen at singlecelltechnology.com
> Web: singlecelltechnology.com
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