A protein–DNA docking benchmark

M. van Dijk; A.M.J.J. Bonvin

doi:10.1093/nar/gkn386

A protein–DNA docking benchmark

M. van Dijk, A.M.J.J. Bonvin

Dept of Chemistry

Research output: Contribution to journal › Article › Academic › peer-review

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.

Original language	Undefined/Unknown
Pages (from-to)	e88/1-e88/5
Number of pages	5
Journal	Nucleic Acids Research
Volume	36
Issue number	14
DOIs	https://doi.org/10.1093/nar/gkn386
Publication status	Published - 2008

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10.1093/nar/gkn386

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Cite this

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