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. Author manuscript; available in PMC: 2007 Jul 30.
Published in final edited form as: Methods. 2007 Apr;41(4):460–474. doi: 10.1016/j.ymeth.2006.07.026

Table 5.

Homology modeling, loop prediction and side-chain optimization methods.*

Method Description/URL
Modeller 7v7 (107) Homology modeling, alignment, loop prediction etc http://salilab.org/modeller/
SegMod/ENCAD (106) Homology modeling http://csb.stanford.edu/levitt/segmod/
Jackal Homology modeling (Nest), side chain prediction (SCAP) and loop prediction (Loopy) http://trantor.bioc.columbia.edu/
PLOP (113) Homology modeling, side chain and loop prediction http://francisco.compbio.ucsf.edu/~jacobson/
RAPPER (114) Loop prediction http://raven.bioc.cam.ac.uk/
SCWRL 3.0 (111) Side chain prediction http://dunbrack.fccc.edu/SCWRL3.php
*

A selection of available tools for the construction and manipulation of homology models

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