Recognition templates for predicting adenylate-binding sites in proteins

Shanrong Zhao, Garrett M. Morris, Arthur J. Olson, David Goodsell

Research output: Contribution to journalArticle

15 Citations (Scopus)

Abstract

Recognition templates encapsulate the structural and energetic features for the specific recognition of a given ligand by a protein active site. These templates identify the major interactions used for specific recognition and may be used to find specific binding sites in proteins of unknown function. We present a grid-based method for deriving recognition templates for adenylate groups from a set of diverse nucleotide-binding proteins. The templates reveal the basis of specific binding of adenylate, including tight shape complementarity, specific hydrogen bonds, and underscoring the importance of a key steric contact for excluding guanylate from adenylate-specific sites. We demonstrate the utility of recognition templates in identifying specific adenylate-binding sites in a diverse set of dinucleotide-binding proteins.

Original languageEnglish (US)
Pages (from-to)1245-1255
Number of pages11
JournalJournal of molecular biology
Volume314
Issue number5
DOIs
StatePublished - Dec 14 2001
Externally publishedYes

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Carrier Proteins
Binding Sites
Hydrogen
Catalytic Domain
Proteins
Nucleotides
Ligands

All Science Journal Classification (ASJC) codes

  • Molecular Biology

Cite this

Zhao, Shanrong ; Morris, Garrett M. ; Olson, Arthur J. ; Goodsell, David. / Recognition templates for predicting adenylate-binding sites in proteins. In: Journal of molecular biology. 2001 ; Vol. 314, No. 5. pp. 1245-1255.
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Recognition templates for predicting adenylate-binding sites in proteins. / Zhao, Shanrong; Morris, Garrett M.; Olson, Arthur J.; Goodsell, David.

In: Journal of molecular biology, Vol. 314, No. 5, 14.12.2001, p. 1245-1255.

Research output: Contribution to journalArticle

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