I don't know how easy this would be to do, but...
Steve White maintains a nice up-to-date database of membrane proteins of known structure (http://blanco.biomol.uci.edu/Membrane_Proteins_xtal.html). Since he has tabulated all of the PDB IDs, it should be trivial for him to supply just a list of the four-letter codes, which could be used as a filter.
Pat
On 6 Apr 2010, at 5:08 PM, Pavel Afonine wrote:
Hi Pascal,_______________________________________________
what are the selection criteria that can be used to identify those structures in PDB? Any specif keywords in PDB file header? Can it be done (such a selection) in a robust way (with minimum guesses and resulting errors)?
If you can formulate these selection criteria, then I will be able to add it to a future version.
Pavel.
On 4/6/10 1:30 PM, Pascal Egea wrote:Dear Developers,
I wonder if there would be a simple way to get the Polygon program implemented in Phenix to use only membrane protein deposited structures as the reference data set. I understand that the reference set is much smaller than the whole menagerie of available structures but it represents an homogenous class of protein (crystallized in detergent).Do you think that this would be meaningful and useful?
Thanks in advance,
--
Pascal F. Egea, PhD
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