[Protein-analysis] Re: pdb-l: About PDB Files and Secondary
(by dan.bolser from gmail.com)
Mon Jun 16 05:26:24 EST 2008
2008/4/23 Narges Habibi <narges.habibi from gmail.com>:
> Hi all,
> I'm doing a project on "Protein Contact Map Prediction" and I use some
> features for nueral network's input, including Secondary Structure of a
> given Amino Acid. There are several ways:
> 1- getting dssp file for each pdb file (from ftp server)
> 2- extracting from pdb file (The HELIX and SHEET and TURN section)
> 3- getting ss file from www.pdb.org (as I see the given sequences in this
> file don't match with the pdb files, why?)
> What do you suggest? What method is more accurate?
I have summarised the various replies to this and similar questions
from the archive into the PDB FAQ here:
Comments and feedback on this summary are appreciated.
> Thanks in advance
> Narges Habibi
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