From owner-chemistry-: at :-ccl.net Wed May 24 08:48:00 2006
From: "Miro Moman miromoman%a%gmail.com" <owner-chemistry[A]server.ccl.net>
To: CCL
Subject: CCL: DNA modelling (missing atoms in PDB files)
Message-Id: <-31822-060524071006-18822-m/tnUWX/mB+LPLbghNs37g[A]server.ccl.net>
X-Original-From: "Miro  Moman" <miromoman[A]gmail.com>
Date: Wed, 24 May 2006 07:10:04 -0400


Sent to CCL by: "Miro  Moman" [miromoman : gmail.com]
Hello,

I am currently modelling protein/DNA complexes. In both protein and DNA structures there are missing atoms/residues. For proteins, I know a number of freely avaliable programs that "guess" the coordinates of the non-resolved atoms and try to reconstruct the structure accordingly (such as SPDBV). However, I could not find any free program able to "correct" the DNA structures in a similar way (the only one I know is LeAP, which comes with the AMBER package). I would very much appreciate any information on such a program.

Miro