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// renumber residues in a protein structure file (pdb)
// May 12, 2011 at 3:54 PM

http://stackoverflow.com/questions/5983689/renumber-residues-in-a-protein-structure-file-pdb
Hi
I am currently involved in making a website aimed at combining all papillomavirus information in a single place.
As part of the effort we are curating all known files on public servers (e.g. genbank)
One of the issues I ran into was that many (~50%) of all solved structures are not numbered according to the protein.
I.e. a subdomain was crystallized (amino acid 310-450) however the crystallographer deposited this as residue 1-140.
I was wondering whether anyone knows of a way to renumber the entire pdb file. I have found ways to renumber the sequence (identified by seqres), however this does not update the helix and sheet information.
I would appreciate it if you had any suggestions…
Thanks


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