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- Title
A protein-DNA docking benchmark.
- Authors
van Dijk, Marc; Bonvin, Alexandre M J J
- Abstract
We present a protein-DNA docking benchmark containing 47 unbound-unbound test cases of which 13 are classified as easy, 22 as intermediate and 12 as difficult cases. The latter shows considerable structural rearrangement upon complex formation. DNA-specific modifications such as flipped out bases and base modifications are included. The benchmark covers all major groups of DNA-binding proteins according to the classification of Luscombe et al., except for the zipper-type group. The variety in test cases make this non-redundant benchmark a useful tool for comparison and development of protein-DNA docking methods. The benchmark is freely available as download from the internet.
- Publication
Nucleic acids research, 2008, Vol 36, Issue 14, pe88
- ISSN
1362-4962
- Publication type
Journal Article
- DOI
10.1093/nar/gkn386