Re: [modeller_usage] gap characters corresponding to the missing residues,
To: AMARA JABEEN AMARA JABEEN <>,
Subject: Re: [modeller_usage] gap characters corresponding to the missing residues,
From: Modeller Caretaker <>
Date: Wed, 24 May 2017 11:32:28 -0700
On 5/23/17 11:37 PM, AMARA JABEEN AMARA JABEEN wrote:
i just want to know if there is any script available in modeller that
put in dashes (gap character) instead of missing residues when sequence
is read from pdb.
No, not in Modeller - it doesn't care about residues that don't have
coordinates, since these are of no use in modeling. I imagine you could
parse the SEQRES records though (or even just guess based on gaps in
residue numbering in ATOM records), depending on how reliable your PDBs are.