The performance of ZDOCK and ZRANK in rounds 6-11 of CAPRI.

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TitleThe performance of ZDOCK and ZRANK in rounds 6-11 of CAPRI.
Publication TypeJournal Article
Year of Publication2007
AuthorsWiehe, K, Pierce, BG, Tong, WWei, Hwang, H, Mintseris, J, Weng, Z
JournalProteins
Volume69
Issue4
Pagination719-25
Date Published2007 Dec 1
ISSN1097-0134
KeywordsAlgorithms, Cluster Analysis, Computational Biology, Computer Simulation, Crystallography, X-Ray, Databases, Protein, Dimerization, Genomics, Ligands, Molecular Conformation, Protein Binding, Protein Conformation, Protein Interaction Mapping, Proteins, Proteomics, Software
Abstract

We present an evaluation of our protein-protein docking approach using the ZDOCK and ZRANK algorithms, in combination with structural clustering and filtering, utilizing biological data in Rounds 6-11 of the CAPRI docking experiment. We achieved at least one prediction of acceptable accuracy for five of six targets submitted. In addition, two targets resulted in medium-accuracy predictions. In the new scoring portion of the CAPRI exercise, we were able to attain at least one acceptable prediction for the three targets submitted and achieved three medium-accuracy predictions for Target 26. Scoring was performed using ZRANK, a new algorithm for reranking initial-stage docking predictions using a weighted energy function and no structural refinement. Here we outline a practical and successful docking strategy, given limited prior biological knowledge of the complex to be predicted.

DOI10.1002/prot.21747
Alternate JournalProteins
PubMed ID17803212