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Hi Pat,<br>
<br>
thanks! The PDB codes seem to be there as well (at least it seems to be
the case from a quick look).<br>
<br>
Pavel.<br>
<br>
<br>
On 4/6/10 2:20 PM, Patrick Loll wrote:
<blockquote cite="mid:BD36CDD6-2458-4054-B051-DC88854EF4D9@drexel.edu"
type="cite">I don't know how easy this would be to do, but...
<div><br>
</div>
<div>Steve White maintains a nice up-to-date database of membrane
proteins of known structure (<a moz-do-not-send="true"
href="http://blanco.biomol.uci.edu/Membrane_Proteins_xtal.html">http://blanco.biomol.uci.edu/Membrane_Proteins_xtal.html</a>).
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.</div>
<div><br>
</div>
<div>Pat </div>
<div><br>
<div>
<div>On 6 Apr 2010, at 5:08 PM, Pavel Afonine wrote:</div>
<br class="Apple-interchange-newline">
<blockquote type="cite">
<div bgcolor="#ffffff" text="#000000"> Hi Pascal,<br>
<br>
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)?<br>
<br>
If you can formulate these selection criteria, then I will be able to
add it to a future version.<br>
<br>
Pavel.<br>
<br>
<br>
On 4/6/10 1:30 PM, Pascal Egea wrote:
<blockquote
cite="mid:m2xb41aa14a1004061330i215d27d6w7cc6f9569b52a6bb@mail.gmail.com"
type="cite">Dear Developers,
<div><br>
</div>
<div>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). </div>
<div>Do you think that this would be meaningful and useful?<br
clear="all">
<br>
</div>
<div>Thanks in advance,</div>
<div><br>
</div>
<div><br>
</div>
<div>-- <br>
Pascal F. Egea, PhD<br>
Assistant Professor<br>
UCLA, David Geffen School of Medicine<br>
Department of Biological Chemistry<br>
314 Biomedical Sciences Research Building <br>
office (310)-983-3515<br>
lab (310)-983-3516<br>
email <a moz-do-not-send="true" href="mailto:pegea@mednet.ucla.edu">pegea@mednet.ucla.edu</a><br>
<br>
</div>
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