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PubMed · 10064723

Three-dimensional structure analysis of PROSITE patterns.

A Kasuya·J M Thornton
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Abstract

Pattern matches for each of the sequence patterns in PROSITE, a database of sequence patterns, were searched in all protein sequences in the Brookhaven Protein Data Bank (PDB). The three-dimensional structures of the pattern matches for the 20 patterns with the largest numbers of hits were analysed. We found that the true positives have a common three-dimensional structure for each pattern; the structures of false positives, found for six of the 20 patterns, were clearly different from those of the true positives. The results suggest that the true pattern matches each have a characteristic common three-dimensional structure, which could be used to create a template to define a three-dimensional functional pattern.

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Adenosine TriphosphateAmino Acid SequenceAnnexinsAspartic Acid EndopeptidasesConserved SequenceCopperCytochrome c GroupDatabases, FactualFalse Positive ReactionsGuanosine TriphosphateModels, MolecularPattern Recognition, AutomatedPeroxidasesProtein ConformationProteinsRNA Ligase (ATP)Structure-Activity RelationshipTrypsinComparative StudyJournal ArticleResearch Support, Non-U.S. Gov't

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A Kasuya, J M Thornton. 1999-03-12. Three-dimensional structure analysis of PROSITE patterns.. https://doi.org/10.1006/jmbi.1999.2581

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