Protein-Protein Docking Benchmark 2.0: an update.

Journal Article (Journal Article)

We present a new version of the Protein-Protein Docking Benchmark, reconstructed from the bottom up to include more complexes, particularly focusing on more unbound-unbound test cases. SCOP (Structural Classification of Proteins) was used to assess redundancy between the complexes in this version. The new benchmark consists of 72 unbound-unbound cases, with 52 rigid-body cases, 13 medium-difficulty cases, and 7 high-difficulty cases with substantial conformational change. In addition, we retained 12 antibody-antigen test cases with the antibody structure in the bound form. The new benchmark provides a platform for evaluating the progress of docking methods on a wide variety of targets. The new version of the benchmark is available to the public at

Full Text

Duke Authors

Cited Authors

  • Mintseris, J; Wiehe, K; Pierce, B; Anderson, R; Chen, R; Janin, J; Weng, Z

Published Date

  • August 1, 2005

Published In

Volume / Issue

  • 60 / 2

Start / End Page

  • 214 - 216

PubMed ID

  • 15981264

Electronic International Standard Serial Number (EISSN)

  • 1097-0134

Digital Object Identifier (DOI)

  • 10.1002/prot.20560


  • eng

Conference Location

  • United States