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dc.contributor.author | Krüger, D.M. | - |
dc.contributor.author | Garzón, José Ignacio | - |
dc.contributor.author | Chacón, Pablo | - |
dc.contributor.author | Gohlke, H. | - |
dc.date.accessioned | 2018-07-11T12:09:21Z | - |
dc.date.available | 2018-07-11T12:09:21Z | - |
dc.date.issued | 2014 | - |
dc.identifier | doi: 10.1371/journal.pone.0089466 | - |
dc.identifier | issn: 1932-6203 | - |
dc.identifier.citation | PLoS ONE 9 (2014) | - |
dc.identifier.uri | http://hdl.handle.net/10261/167568 | - |
dc.description.abstract | The distance-dependent knowledge-based DrugScorePPI potentials, previously developed for in silico alanine scanning and hot spot prediction on given structures of protein-protein complexes, are evaluated as a scoring and objective function for the structure prediction of protein-protein complexes. When applied for ranking >unbound perturbation> (>unbound docking>) decoys generated by Baker and coworkers a 4-fold (1.5-fold) enrichment of acceptable docking solutions in the top ranks compared to a random selection is found. When applied as an objective function in FRODOCK for bound protein-protein docking on 97 complexes of the ZDOCK benchmark 3.0, DrugScorePPI/FRODOCK finds up to 10% (15%) more high accuracy solutions in the top 1 (top 10) predictions than the original FRODOCK implementation. When used as an objective function for global unbound protein-protein docking, fair docking success rates are obtained, which improve by ∼2-fold to 18% (58%) for an at least acceptable solution in the top 10 (top 100) predictions when performing knowledge-driven unbound docking. This suggests that DrugScorePPI balances well several different types of interactions important for protein-protein recognition. The results are discussed in view of the influence of crystal packing and the type of protein-protein complex docked. Finally, a simple criterion is provided with which to estimate a priori if unbound docking with DrugScorePPI/ FRODOCK will be successful. © 2014 Krüger et al. | - |
dc.publisher | Public Library of Science | - |
dc.relation.isversionof | Publisher's version | - |
dc.rights | openAccess | - |
dc.title | DrugScorePPI knowledge-based potentials used as scoring and objective function in protein-protein docking | - |
dc.type | artículo | - |
dc.identifier.doi | 10.1371/journal.pone.0089466 | - |
dc.date.updated | 2018-07-11T12:09:21Z | - |
dc.description.version | Peer Reviewed | - |
dc.language.rfc3066 | eng | - |
dc.identifier.pmid | 24586799 | - |
dc.type.coar | http://purl.org/coar/resource_type/c_6501 | es_ES |
item.fulltext | With Fulltext | - |
item.grantfulltext | open | - |
item.cerifentitytype | Publications | - |
item.openairetype | artículo | - |
item.openairecristype | http://purl.org/coar/resource_type/c_18cf | - |
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