[modeller_usage] how to treat an unaligned 46-amino acid long insertion
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Subject: [modeller_usage] how to treat an unaligned 46-amino acid long insertion
From: Thomas Evangelidis <>
Date: Mon, 15 Feb 2010 02:03:03 +0000
Dear modellers,
what's the best way to refine the structure of a 46 amino acid long insertion which is not aligned with any of the templates? As far as I know loop refinement can be applied to shorter parts of the protein. As a matter of fact I've already tested the slow mode but this part still looks disordered. I have also performed a PSI-BLAST search but haven't found any pdb structure which matches this part of my target sequence.