eF-seek: prediction of the functional sites of proteins by searching for similar electrostatic potential and molecular surface shape.

eF-seek: prediction of the functional sites of proteins by searching for similar electrostatic potential and molecular surface shape. Research Abstract Details 

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eF-seek: prediction of the functional sites of proteins by searching for similar electrostatic potential and molecular surface shape. Abstract Text:

Kengo Kinoshita,Yoichi Murakami,Haruki Nakamura,

We have developed a method to predict ligand-binding sites in a new protein structure by searching for similar binding sites in the Protein Data Bank (PDB). The similarities are measured according to the shapes of the molecular surfaces and their electrostatic potentials. A new web server, eF-seek, provides an interface to our search method. It simply requires a coordinate file in the PDB format, and generates a prediction result as a virtual complex structure, with the putative ligands in a PDB format file as the output. In addition, the predicted interacting interface is displayed to facilitate the examination of the virtual complex structure on our own applet viewer with the web browser (URL: http://eF-site.hgc.jp/eF-seek).

eF-seek: prediction of the functional sites of proteins by searching for similar electrostatic potential and molecular surface shape. Publishing Authors By Initials

K Kinoshita,Y Murakami,H Nakamura,

For similar information science: computing methodologies: software: user-computer interface research abstracts see: information science: computing methodologies: software: user-computer interface research

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eF-seek: prediction of the functional sites of proteins by searching for similar electrostatic potential and molecular surface shape. Journal Published:

PUBLICATION TYPE: Research Support, Non-U.S. Gov

Journal: Nucleic acids research

VOLUME: 35

Page Numbers: W398-402

Journal Abbreviation: Nucleic Acids Res.

ISSN: 1362-4962

DAY: 12

MONTH: 06

YEAR: 2007

eF-seek: prediction of the functional sites of proteins by searching for similar electrostatic potential and molecular surface shape. Information

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LANGUAGE: eng

NlmUniqueID: 411011

eF-seek: prediction of the functional sites of proteins by searching for similar electrostatic potential and molecular surface shape. Keywords Mesh Terms:

KEYWORDS: User-Computer Interface

MESH TERMS: classification

Chemical & Substance for Abstract: eF-seek: prediction of the functional sites of proteins by searching for similar electrostatic potential and molecular surface shape. Information

Substance Name: Proteins

Registry Number: 0

Grant and Affiliation Information for eF-seek: prediction of the functional sites of proteins by searching for similar electrostatic potential and molecular surface shape.

AFFILIATION: Institute of Medical Science, University of Tokyo, 4-6-1 Shirokanedai, Minatoku, Tokyo, 108-8639, Japan. kino@ims.u-tokyo.ac.jp

Country: England

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MEDLINETA: Nucleic Acids Res

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