[Chimera-users] What do you do for comparative modeling if the pdb is so new it's not in UniProt?

[Ralph Loring]

Hi,
I'm very new to Chimera and have been working through the tutorials,
including the Comparative Modeling Tutorial.  However I'm stumped.  I'm
interested in modeling chimeric proteins that involve the following pdbs:
PDB 7KOO, 7KOX and 7KOQ and I can't get the sequence in my chimera to align
with the template structure in the pdbs.  The problem is that the template
pdbs only came out in April and are not yet included in UniProt.  They are
deposited in RSCB and EMDB, but these don't appear to be alignment options
in Chimera.  Do I need to appeal to UniProt, or is there an alternative way
to make the association between the sequence and the structure?  Any
additional tutorials on using MAV would be helpful as there seem to be a
lot of editing features that are not explored in your tutorial.
Thanks for your help,

Ralph Loring
Associate Professor of Pharmacology
Department of Pharmaceutical Sciences
Northeastern University
360 Huntington Avenue
Boston, MA 02115 USA
617-373-3216 office
617-373-8886 fax
r.loring at northeastern.edu
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