期刊
PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS
卷 81, 期 11, 页码 1980-1987出版社
WILEY
DOI: 10.1002/prot.24356
关键词
CAPRI; hemagglutinin; binding; deep mutational scanning; yeast display
资金
- National Science Foundation [DBI-0845196, IOS-1126992]
- Spanish Ministry of Science [BIO2010-22324]
- Defense Threat Reduction Agency [HDTRA1-10-0040]
- Direct For Biological Sciences
- Division Of Integrative Organismal Systems [1126992] Funding Source: National Science Foundation
- Div Of Biological Infrastructure
- Direct For Biological Sciences [1147082] Funding Source: National Science Foundation
- Div Of Biological Infrastructure
- Direct For Biological Sciences [0845196] Funding Source: National Science Foundation
- Grants-in-Aid for Scientific Research [23370071] Funding Source: KAKEN
- Cancer Research UK [10748] Funding Source: researchfish
Community-wide blind prediction experiments such as CAPRI and CASP provide an objective measure of the current state of predictive methodology. Here we describe a community-wide assessment of methods to predict the effects of mutations on protein-protein interactions. Twenty-two groups predicted the effects of comprehensive saturation mutagenesis for two designed influenza hemagglutinin binders and the results were compared with experimental yeast display enrichment data obtained using deep sequencing. The most successful methods explicitly considered the effects of mutation on monomer stability in addition to binding affinity, carried out explicit side-chain sampling and backbone relaxation, evaluated packing, electrostatic, and solvation effects, and correctly identified around a third of the beneficial mutations. Much room for improvement remains for even the best techniques, and large-scale fitness landscapes should continue to provide an excellent test bed for continued evaluation of both existing and new prediction methodologies. Proteins 2013; 81:1980-1987. (c) 2013 Wiley Periodicals, Inc.
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