Sun., May 23rd 2010
EBI

Paul,

1. yes you can run your sequence against all PDB.

1. http://www.ebi.ac.uk/pdbe-srv/view/
drop the one letter sequence in the sequence box
and search

2. http://www.ebi.ac.uk/Tools/fasta33/index.html

From the Databases protein you pick
Protein structure Sequence

You drop your 1-letter code sequence in the sequence box and search
You

both 1&2 run the same search but the layout of the output is a
bit different.

3. You can also try http://meta.bioinfo.pl/submit_wizard.pl
it will predict 3D structure using many methods.

Miri

On Sun, 23 May 2010, 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

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Dr Miri Hirshberg
European Bioinformatics Institute UK
PDBe - EBI -EMBL
http://www.ebi.ac.uk/pdbe

Phone: +44 (0) 1223 492647
FAX:   +44 (0) 1223 494468
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