Source:http://linkedlifedata.com/resource/pubmed/id/15906321
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| Predicate | Object |
|---|---|
| rdf:type | |
| lifeskim:mentions | |
| pubmed:issue |
3
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| pubmed:dateCreated |
2005-7-18
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| pubmed:abstractText |
Predicting protein-protein interfaces from a three-dimensional structure is a key task of computational structural proteomics. In contrast to geometrically distinct small molecule binding sites, protein-protein interface are notoriously difficult to predict. We generated a large nonredundant data set of 1494 true protein-protein interfaces using biological symmetry annotation where necessary. The data set was carefully analyzed and a Support Vector Machine was trained on a combination of a new robust evolutionary conservation signal with the local surface properties to predict protein-protein interfaces. Fivefold cross validation verifies the high sensitivity and selectivity of the model. As much as 97% of the predicted patches had an overlap with the true interface patch while only 22% of the surface residues were included in an average predicted patch. The model allowed the identification of potential new interfaces and the correction of mislabeled oligomeric states.
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| pubmed:language |
eng
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| pubmed:journal | |
| pubmed:citationSubset |
IM
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| pubmed:chemical | |
| pubmed:status |
MEDLINE
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| pubmed:month |
Aug
|
| pubmed:issn |
1097-0134
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| pubmed:author | |
| pubmed:copyrightInfo |
(c) 2005 Wiley-Liss, Inc.
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| pubmed:issnType |
Electronic
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| pubmed:day |
15
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| pubmed:volume |
60
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| pubmed:owner |
NLM
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| pubmed:authorsComplete |
Y
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| pubmed:pagination |
353-66
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| pubmed:dateRevised |
2006-11-15
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| pubmed:meshHeading |
pubmed-meshheading:15906321-Animals,
pubmed-meshheading:15906321-Binding Sites,
pubmed-meshheading:15906321-Biophysics,
pubmed-meshheading:15906321-Computational Biology,
pubmed-meshheading:15906321-Crystallography, X-Ray,
pubmed-meshheading:15906321-Databases, Protein,
pubmed-meshheading:15906321-Dimerization,
pubmed-meshheading:15906321-Evolution, Molecular,
pubmed-meshheading:15906321-Humans,
pubmed-meshheading:15906321-Models, Molecular,
pubmed-meshheading:15906321-Models, Statistical,
pubmed-meshheading:15906321-Protein Binding,
pubmed-meshheading:15906321-Protein Conformation,
pubmed-meshheading:15906321-Protein Interaction Mapping,
pubmed-meshheading:15906321-Proteins,
pubmed-meshheading:15906321-Proteomics,
pubmed-meshheading:15906321-ROC Curve,
pubmed-meshheading:15906321-Sensitivity and Specificity,
pubmed-meshheading:15906321-Sequence Analysis, Protein,
pubmed-meshheading:15906321-Surface Properties
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| pubmed:year |
2005
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| pubmed:articleTitle |
Statistical analysis and prediction of protein-protein interfaces.
|
| pubmed:affiliation |
Molsoft LLC, San Diego, California, USA. bordner@ornl.gov
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| pubmed:publicationType |
Journal Article,
Research Support, U.S. Gov't, Non-P.H.S.
|