New encouraging developments in contact prediction: Assessment of the CASP11 results

Handle URI:
http://hdl.handle.net/10754/598971
Title:
New encouraging developments in contact prediction: Assessment of the CASP11 results
Authors:
Monastyrskyy, Bohdan; D'Andrea, Daniel; Fidelis, Krzysztof; Tramontano, Anna; Kryshtafovych, Andriy
Abstract:
© 2015 Wiley Periodicals, Inc. This article provides a report on the state-of-the-art in the prediction of intra-molecular residue-residue contacts in proteins based on the assessment of the predictions submitted to the CASP11 experiment. The assessment emphasis is placed on the accuracy in predicting long-range contacts. Twenty-nine groups participated in contact prediction in CASP11. At least eight of them used the recently developed evolutionary coupling techniques, with the top group (CONSIP2) reaching precision of 27% on target proteins that could not be modeled by homology. This result indicates a breakthrough in the development of methods based on the correlated mutation approach. Successful prediction of contacts was shown to be practically helpful in modeling three-dimensional structures; in particular target T0806 was modeled exceedingly well with accuracy not yet seen for ab initio targets of this size (>250 residues).
Citation:
Monastyrskyy B, D’Andrea D, Fidelis K, Tramontano A, Kryshtafovych A (2015) New encouraging developments in contact prediction: Assessment of the CASP11 results. Proteins: Structure, Function, and Bioinformatics: n/a–n/a. Available: http://dx.doi.org/10.1002/prot.24943.
Publisher:
Wiley-Blackwell
Journal:
Proteins: Structure, Function, and Bioinformatics
KAUST Grant Number:
KUK-I1-012-43
Issue Date:
Oct-2015
DOI:
10.1002/prot.24943
PubMed ID:
26474083
Type:
Article
ISSN:
0887-3585
Sponsors:
Grant sponsor: US National Institute of General Medical Sciences (NIGMS/NIH);Grant number: R01GM100482; Grant sponsor: KAUST Award; Grant number:KUK-I1-012-43.
Appears in Collections:
Publications Acknowledging KAUST Support

Full metadata record

DC FieldValue Language
dc.contributor.authorMonastyrskyy, Bohdanen
dc.contributor.authorD'Andrea, Danielen
dc.contributor.authorFidelis, Krzysztofen
dc.contributor.authorTramontano, Annaen
dc.contributor.authorKryshtafovych, Andriyen
dc.date.accessioned2016-02-25T13:50:20Zen
dc.date.available2016-02-25T13:50:20Zen
dc.date.issued2015-10en
dc.identifier.citationMonastyrskyy B, D’Andrea D, Fidelis K, Tramontano A, Kryshtafovych A (2015) New encouraging developments in contact prediction: Assessment of the CASP11 results. Proteins: Structure, Function, and Bioinformatics: n/a–n/a. Available: http://dx.doi.org/10.1002/prot.24943.en
dc.identifier.issn0887-3585en
dc.identifier.pmid26474083en
dc.identifier.doi10.1002/prot.24943en
dc.identifier.urihttp://hdl.handle.net/10754/598971en
dc.description.abstract© 2015 Wiley Periodicals, Inc. This article provides a report on the state-of-the-art in the prediction of intra-molecular residue-residue contacts in proteins based on the assessment of the predictions submitted to the CASP11 experiment. The assessment emphasis is placed on the accuracy in predicting long-range contacts. Twenty-nine groups participated in contact prediction in CASP11. At least eight of them used the recently developed evolutionary coupling techniques, with the top group (CONSIP2) reaching precision of 27% on target proteins that could not be modeled by homology. This result indicates a breakthrough in the development of methods based on the correlated mutation approach. Successful prediction of contacts was shown to be practically helpful in modeling three-dimensional structures; in particular target T0806 was modeled exceedingly well with accuracy not yet seen for ab initio targets of this size (>250 residues).en
dc.description.sponsorshipGrant sponsor: US National Institute of General Medical Sciences (NIGMS/NIH);Grant number: R01GM100482; Grant sponsor: KAUST Award; Grant number:KUK-I1-012-43.en
dc.publisherWiley-Blackwellen
dc.subjectCASPen
dc.subjectCo-variationen
dc.subjectContact predictionen
dc.subjectCorrelated mutationsen
dc.subjectEvolutionary couplingen
dc.titleNew encouraging developments in contact prediction: Assessment of the CASP11 resultsen
dc.typeArticleen
dc.identifier.journalProteins: Structure, Function, and Bioinformaticsen
dc.contributor.institutionGenome Center; University of California, Davis; 415 Health Sciences Dr. Davis CA 95616 USAen
dc.contributor.institutionDepartment of Physics; Sapienza - University of Rome; 5 P. le Aldo Moro 00185 Rome Italyen
dc.contributor.institutionIstituto Pasteur - Fondazione Cenci Bolognetti - University of Rome; 5 P. le Aldo Moro 00185 Rome Italyen
kaust.grant.numberKUK-I1-012-43en

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