Dear Paul,
A few options may be of interest:
RCSB PDB Sequence Searching:
Paste your sequence into the sequence search box at:
http://www.pdb.org/pdb/search/advSearch.do?st=SequenceQuery
(also available from Advanced Search and from the Sequence Search of
the left hand menu).
Sequence search results are ordered by e-value. Note, the sequence
alignment on the results page comes from the BLAST output file. BLAST
uses the sequence from SEQRES and the sequence numbering always
starts at 1. The sequence numbers of the residues in the ATOM records
may be different.
To see which part of an aligned sequence is actually present in a
structure, go to the Structure Summary page for an entry and click on
the Sequence tab.
PSI Structural Genomics Knowledgebase:
Paste your sequence into the search box at
http://kb.psi-structuralgenomics.org/
This search will return any related structures, models, targets,
protocols, and materials.
MRBUMP (CCP4: Supported Program):
http://www.ccp4.ac.uk/MrBUMP/mrbump_doc.html
For a given target sequence, automated discovery of chains, domains
and multimers that are possible templates for molecular replacement
search models
Christine
RCSB Protein Data Bank
On 05/23/10 15:23, Paul Lindblom wrote:
Hi everybody,
I just crystallized a new project protein. How can I find a
possible model for using molecular replacement? I have the
sequence of my protein. Is it enough to make a sequence search in
the pdb? Or is there another approach I can use?
Thanks a lot,
Paul
