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Bioinformatics Advance Access published online on February 10, 2004
Bioinformatics, doi:10.1093/bioinformatics/bth073
Bioinformatics © Oxford University Press 2004; all rights reserved
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Received September 2, 2003
Revised October 27, 2003
Accepted November 13, 2003

Applications note

eF-site and PDBjViewer: database and viewer for protein functional sites

Kengo Kinoshita 1 Haruki Nakamura 2*

1 Graduate School of Integrated Science, Yokohama City University, 1-7-29 Suehiro-cho, Turumi-ku, Yokohama, 230-0045, Japan; Graduate School of Integrated Science, Yokohama City University, 1-7-29 Suehiro-cho, Turumi-ku, Yokohama, 230-0045, Japan
2 Institute for Protein Research, Osaka University, 3-2 Yamadaoka, Suita, Osaka, 565-0871, Japan

* To whom correspondence should be addressed. E-mail: harukin{at}protein.osaka-u.ac.jp.


  Abstract

Summary: The eF-site (electrostatic-surface of Functional site) is a database for the molecular surfaces of protein functional sites. To enable browsing of each molecular surface along with the atomic model, we have developed a new 3D interactive viewer, PDBjViewer, which can be used both as an applet and as a stand-alone program.

Availability: The eF-site database and PDBjViewer are freely available from http://www.pdbj.org/eF-site/.


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