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Bioinformatics Advance Access originally published online on November 30, 2006
Bioinformatics 2007 23(3):375-377; doi:10.1093/bioinformatics/btl584
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© The Author 2006. Published by Oxford University Press. All rights reserved. For Permissions, please email: journals.permissions@oxfordjournals.org

Crystallographic protein model-building on the web

Kreshna Gopal 1,*, Erik McKee 1, Tod Romo 2, Reetal Pai 1, Jacob Smith 1, James Sacchettini 2 and Thomas Ioerger 1

1 Department of Computer Science, Texas A&M University 301 H.R. Bright Building, College Station, TX 77843-3112, USA
2 Department of Biochemistry and Biophysics, Texas A&M University 103 Bio-Bio Building, College Station, TX 77843-2128, USA

*To whom correspondence should be addressed.


  Abstract

Summary: X-ray crystallography is the most widely used method to determine the 3D structure of protein molecules. One of the most difficult steps in protein crystallography is model-building, which consists of constructing a backbone and then amino acid side chains into an electron density map. Interpretation of electron density maps represents a major bottleneck in protein structure determination pipelines, and thus, automated techniques to interpret maps can greatly improve the throughput. We have developed WebTex, a simple and yet powerful web interface to TEXTAL, a program that automates this process of fitting atoms into electron density maps. TEXTAL can also be downloaded for local installation.

Availability: Web interface, downloadable binaries and documentation at http://textal.tamu.edu

Contact: textal{at}tamu.edu

Associate Editor: Martin Bishop

Received on March 29, 2006; revised on November 12, 2006; accepted on November 16, 2006

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