I'm pretty sure that this is exactly what you want. You can search for
sequence, specific type of motif, phi/psi angles all in one search.
http://www.ebi.ac.uk/msd-srv/msdmotif/
The interface has changed since I last used it properly, but it found a
set of beta turns with the same sequence that I was interested in.
Cheers,
Charlie
Sean Johnson wrote:
Is there a way to search the PDB for both sequence and secondary
structure characteristics? I am trying to identify examples of a short
(4 aa) sequence located in loop or other non-helical/sheet regions.
Thanks,
Sean Johnson
--
Charlie Bond
Professorial Fellow
University of Western Australia
School of Biomedical, Biomolecular and Chemical Sciences
M310
35 Stirling Highway
Crawley WA 6009
Australia
[EMAIL PROTECTED]
+61 8 6488 4406
