Potentials 'R'Us web-server for protein energy estimations with coarse-grained knowledge-based potentials

dc.contributor.author Feng, Yaping
dc.contributor.author Kloczkowski, Andrzej
dc.contributor.author Jernigan, Robert
dc.contributor.author Jernigan, Robert
dc.contributor.department Biochemistry, Biophysics and Molecular Biology
dc.contributor.department Baker Center for Bioinformatics and Biological Statistics
dc.date 2018-02-19T01:03:07.000
dc.date.accessioned 2020-06-29T23:46:02Z
dc.date.available 2020-06-29T23:46:02Z
dc.date.copyright Fri Jan 01 00:00:00 UTC 2010
dc.date.issued 2010-01-01
dc.description.abstract <p><h3>Background</h3></p> <p>Knowledge-based potentials have been widely used in the last 20 years for fold recognition, protein structure prediction from amino acid sequence, ligand binding, protein design, and many other purposes. However generally these are not readily accessible online. <h3>Results</h3></p> <p>Our new knowledge-based potential server makes available many of these potentials for easy use to automatically compute the energies of protein structures or models supplied. Our web server for protein energy estimation uses four-body potentials, short-range potentials, and 23 different two-body potentials. Users can select potentials according to their needs and preferences. Files containing the coordinates of protein atoms in the PDB format can be uploaded as input. The results will be returned to the user's email address. <h3>Conclusions</h3></p> <p>Our Potentials 'R'Us server is an easily accessible, freely available tool with a web interface that collects all existing and future protein coarse-grained potentials and computes energies of multiple structural models.</p>
dc.description.comments <p>This article is published as Feng, Yaping, Andrzej Kloczkowski, and Robert L. Jernigan. "Potentials' R'Us web-server for protein energy estimations with coarse-grained knowledge-based potentials." BMC bioinformatics 11, no. 1 (2010): 92. doi: <a href="https://doi.org/10.1186/1471-2105-11-92" target="_blank">10.1186/1471-2105-11-92</a>. Posted with permission.</p>
dc.format.mimetype application/pdf
dc.identifier archive/lib.dr.iastate.edu/bbmb_ag_pubs/156/
dc.identifier.articleid 1164
dc.identifier.contextkey 10981374
dc.identifier.s3bucket isulib-bepress-aws-west
dc.identifier.submissionpath bbmb_ag_pubs/156
dc.identifier.uri https://dr.lib.iastate.edu/handle/20.500.12876/10617
dc.language.iso en
dc.source.bitstream archive/lib.dr.iastate.edu/bbmb_ag_pubs/156/2010_Jernigan_PotentialsWeb.pdf|||Fri Jan 14 20:43:41 UTC 2022
dc.source.uri 10.1186/1471-2105-11-92
dc.subject.disciplines Biochemistry
dc.subject.disciplines Bioinformatics
dc.subject.disciplines Biophysics
dc.subject.disciplines Molecular Biology
dc.subject.disciplines Structural Biology
dc.title Potentials 'R'Us web-server for protein energy estimations with coarse-grained knowledge-based potentials
dc.type article
dc.type.genre article
dspace.entity.type Publication
relation.isAuthorOfPublication 50d10ea7-68f5-4cc5-8858-375cef177ed2
relation.isOrgUnitOfPublication c70f85ae-e0cd-4dce-96b5-4388aac08b3f
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