Catalytic site identification--a web server to identify catalytic site structural matches throughout PDB.

Daniel A. Kirshner, Jerome P. Nilmeier, Felice C Lightstone

Research output: Contribution to journalArticle

14 Citations (Scopus)

Abstract

The catalytic site identification web server provides the innovative capability to find structural matches to a user-specified catalytic site among all Protein Data Bank proteins rapidly (in less than a minute). The server also can examine a user-specified protein structure or model to identify structural matches to a library of catalytic sites. Finally, the server provides a database of pre-calculated matches between all Protein Data Bank proteins and the library of catalytic sites. The database has been used to derive a set of hypothesized novel enzymatic function annotations. In all cases, matches and putative binding sites (protein structure and surfaces) can be visualized interactively online. The website can be accessed at http://catsid.llnl.gov.

Original languageEnglish (US)
JournalNucleic Acids Research
Volume41
Issue numberWeb Server issue
DOIs
StatePublished - Jul 2013
Externally publishedYes

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Catalytic Domain
Databases
Proteins
Carrier Proteins
Binding Sites

ASJC Scopus subject areas

  • Genetics

Cite this

Catalytic site identification--a web server to identify catalytic site structural matches throughout PDB. / Kirshner, Daniel A.; Nilmeier, Jerome P.; Lightstone, Felice C.

In: Nucleic Acids Research, Vol. 41, No. Web Server issue, 07.2013.

Research output: Contribution to journalArticle

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