Hi, How do I use swapaa to do mutations on seven to ten residues in one command? Thanks Krish
Krishnan Raman Executive Director, Structural Biology BioCryst Pharmaceuticals
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Hi Krish, You can only do that if they are all changing to the same type. With that caveat, simply specify all the residues in that one command, e.g.
swapaa /A:12-14/B:8,13 arg
...would change residues 12-24 in chain A and residues 8,13 in chain B to arginine.
See "swapaa" usage as well as general page on command-line specification of atoms, residues, etc. https://rbvi.ucsf.edu/chimerax/docs/user/commands/swapaa.html https://rbvi.ucsf.edu/chimerax/docs/user/commands/atomspec.html
I hope this helps, Elaine ----- Elaine C. Meng, Ph.D. UCSF Chimera(X) team Department of Pharmaceutical Chemistry University of California, San Francisco
On Jul 22, 2023, at 1:19 PM, Krishnan Raman via ChimeraX-users chimerax-users@cgl.ucsf.edu wrote:
Hi, How do I use swapaa to do mutations on seven to ten residues in one command? Thanks Krish
Hi Elaine, Thanks. Let me try to play with that a little more. Always appreciate your quick response and help. Krish
-----Original Message----- From: Elaine Meng meng@cgl.ucsf.edu Sent: Sunday, July 23, 2023 12:45 PM To: Krishnan Raman RKrishnan@BIOCRYST.com Cc: chimerax-users@cgl.ucsf.edu Subject: Re: [chimerax-users] Swapaa doubt
[EXTERNAL]
Hi Krish, You can only do that if they are all changing to the same type. With that caveat, simply specify all the residues in that one command, e.g.
swapaa /A:12-14/B:8,13 arg
...would change residues 12-24 in chain A and residues 8,13 in chain B to arginine.
See "swapaa" usage as well as general page on command-line specification of atoms, residues, etc. https://link.edgepilot.com/s/c460dc4f/DLMHg87i0EmgGzeT6eODtA?u=https://rbvi.ucsf.edu/chimerax/docs/user/commands/swapaa.html https://link.edgepilot.com/s/8f52e1b2/Y-AN5a7sXkOiO2YkvPWiZw?u=https://rbvi.ucsf.edu/chimerax/docs/user/commands/atomspec.html
I hope this helps, Elaine ----- Elaine C. Meng, Ph.D. UCSF Chimera(X) team Department of Pharmaceutical Chemistry University of California, San Francisco
On Jul 22, 2023, at 1:19 PM, Krishnan Raman via ChimeraX-users chimerax-users@cgl.ucsf.edu wrote:
Hi, How do I use swapaa to do mutations on seven to ten residues in one command? Thanks Krish
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participants (2)
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Elaine Meng
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Krishnan Raman