Title
Performance of ZDOCK and IRAD in CAPRI rounds 28-34
UMMS Affiliation
Program in Bioinformatics and Integrative Biology
Publication Date
2017-03-01
Document Type
Article
Disciplines
Biochemistry, Biophysics, and Structural Biology | Bioinformatics | Computational Biology | Integrative Biology | Systems Biology
Abstract
We report the performance of our protein-protein docking pipeline, including the ZDOCK rigid-body docking algorithm, on 19 targets in CAPRI rounds 28-34. Following the docking step, we reranked the ZDOCK predictions using the IRAD scoring function, pruned redundant predictions, performed energy landscape analysis, and utilized our interface prediction approach RCF. In addition, we applied constraints to the search space based on biological information that we culled from the literature, which increased the chance of making a correct prediction. For all but two targets we were able to find and apply biological information and we found the information to be highly accurate, indicating that effective incorporation of biological information is an important component for protein-protein docking.
Keywords
ZRANK, complex, docking, protein-protein interaction, structure
DOI of Published Version
10.1002/prot.25186
Source
Proteins. 2017 Mar;85(3):408-416. doi: 10.1002/prot.25186. Epub 2016 Oct 24. Link to article on publisher's site
Journal/Book/Conference Title
Proteins
Related Resources
PubMed ID
27718275
Repository Citation
Vreven T, Pierce BG, Borrman TM, Weng Z. (2017). Performance of ZDOCK and IRAD in CAPRI rounds 28-34. Program in Bioinformatics and Integrative Biology Publications and Presentations. https://doi.org/10.1002/prot.25186. Retrieved from https://escholarship.umassmed.edu/bioinformatics_pubs/118