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SITEHOUND-web: a server for ligand binding site identification in protein structures.

ABSTRACT: SITEHOUND-web (http://sitehound.sanchezlab.org) is a binding-site identification server powered by the SITEHOUND program. Given a protein structure in PDB format SITEHOUND-web will identify regions of the protein characterized by favorable interactions with a probe molecule. These regions correspond to putative ligand binding sites. Depending on the probe used in the calculation, sites with preference for different ligands will be identified. Currently, a carbon probe for identification of binding sites for drug-like molecules, and a phosphate probe for phosphorylated ligands (ATP, phoshopeptides, etc.) have been implemented. SITEHOUND-web will display the results in HTML pages including an interactive 3D representation of the protein structure and the putative sites using the Jmol java applet. Various downloadable data files are also provided for offline data analysis.

SUBMITTER: Hernandez M

PROVIDER: S-EPMC2703923 | biostudies-literature | 2009 Jul

REPOSITORIES: biostudies-literature

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SITEHOUND-web: a server for ligand binding site identification in protein structures.

Hernandez Marylens M Ghersi Dario D Sanchez Roberto R

Nucleic acids research 20090426 Web Server issue

SITEHOUND-web (http://sitehound.sanchezlab.org) is a binding-site identification server powered by the SITEHOUND program. Given a protein structure in PDB format SITEHOUND-web will identify regions of the protein characterized by favorable interactions with a probe molecule. These regions correspond to putative ligand binding sites. Depending on the probe used in the calculation, sites with preference for different ligands will be identified. Currently, a carbon probe for identification of bindi ...[more]

PMID: 19398430

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Dataset Information

SITEHOUND-web: a server for ligand binding site identification in protein structures.

Publications

SITEHOUND-web: a server for ligand binding site identification in protein structures.

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