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ZDOCK and RDOCK performance in CAPRI rounds 3, 4, and 5
Author(s) -
Wiehe Kevin,
Pierce Brian,
Mintseris Julian,
Tong Wei Wei,
Anderson Robert,
Chen Rong,
Weng Zhiping
Publication year - 2005
Publication title -
proteins: structure, function, and bioinformatics
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 1.699
H-Index - 191
eISSN - 1097-0134
pISSN - 0887-3585
DOI - 10.1002/prot.20559
Subject(s) - fast fourier transform , computer science , algorithm , docking (animal) , fourier transform , minification , energy minimization , chemistry , mathematics , computational chemistry , medicine , mathematical analysis , nursing , programming language
We present an evaluation of the results of our ZDOCK and RDOCK algorithms in Rounds 3, 4, and 5 of the protein docking challenge CAPRI. ZDOCK is a Fast Fourier Transform (FFT)‐based, initial‐stage rigid‐body docking algorithm, and RDOCK is an energy minimization algorithm for refining and reranking ZDOCK results. Of the 9 targets for which we submitted predictions, we attained at least acceptable accuracy for 7, at least medium accuracy for 6, and high accuracy for 3. These results are evidence that ZDOCK in combination with RDOCK is capable of making accurate predictions on a diverse set of protein complexes. Proteins 2005;60:207–213. © 2005 Wiley‐Liss, Inc.