[phenixbb] Error in sequence assignment
tterwilliger at newmexicoconsortium.org
Sun Nov 17 16:32:18 PST 2019
I'm afraid there isn't a way to say which sequence goes with which chain.
I would suggest using the tool phenix.replace_side_chains. Give it 1 chain
and 1 sequence and if they have the same length it should just put it in.
If it doesn't work, try phenix.sequence_from_map which can do the same
Let me know if that doesn't do it!
All the best,
Date: Sun, 17 Nov 2019 17:07:16 -0500
From: Nicholas Gao <dominion146 at GMAIL.COM>
Subject: Specify chain assignment in sequence file for rebuild-in-place of
I currently have an MR solution that has the wrong sequence. The pdb file
of the solution contains 3 chains, and I'd like to use the rebuild-in-place
functionality within phenix.autobuild to correct the sequence of all 3
chains. Phenix allows me to supply a sequence file as input for this job,
it's not clear to me how I tell the program which sequence should be
assigned to which chain. Anyone know how to do this?
Thomas C Terwilliger
Laboratory Fellow, Los Alamos National Laboratory
Senior Scientist, New Mexico Consortium
100 Entrada Dr, Los Alamos, NM 87544
Email: tterwilliger at newmexicoconsortium.org
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