The DOI matches its Crossref record; 3 of the 3 references it cites were found in a registry or an index.
Protein–protein docking benchmark version 4.0
Open accessAbstract
We updated our protein–protein docking benchmark to include complexes that became available since our previous release. As before, we only considered high‐resolution complex structures that are nonredundant at the family–family pair level, for which the X‐ray or NMR unbound structures of the constituent proteins are also available. Benchmark 4.0 adds 52 new complexes to the 124 cases of Benchmark 3.0, representing an increase of 42%. Thus, benchmark 4.0 provides 176 unbound–unbound cases that can be used for protein–protein docking method development and assessment. Seventeen of the newly added cases are enzyme‐inhibitor complexes, and we found no new antigen‐antibody complexes. Classifying the new cases according to expected difficulty for protein–protein docking algorithms gives 33 rigid body cases, 11 cases of medium difficulty, and 8 cases that are difficult. Benchmark 4.0 listings and processed structure files are publicly accessible at http://zlab.umassmed.edu/benchmark/ Proteins 2010. © 2010 Wiley‐Liss, Inc.
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HADDOCK: A Protein−Protein Docking Approach Based on Biochemical or Biophysical Information
Dominguez, C., Boelens, R., & Bonvin, A. M. J. J. (2003) · Journal of the American Chemical Society · doi:10.1021/ja026939x · Cited by 3,187
ZDOCK: An initial‐stage protein‐docking algorithm
Chen, R., Li, L., & Weng, Z. (2003) · Proteins: Structure, Function, and Bioinformatics · doi:10.1002/prot.10389 · Cited by 1,393 · cited 2×
“49 2599 1OC0_A:B E 1B3K_A Plasminogen activator inhibitor-1 2JQ8_A(4) Vitronectin Somatomedin B domain 1 1312 1OYV_A:I E 1SCD_A Subtilisin Carlsberg 1PJU_A Two-headed tomato inhibitor-II 0.”
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Janin, J., Henrick, K., Moult, J., Eyck, L. T., Sternberg, M. J. E., Vajda, S., Vakser, I., & Wodak, S. J. (2003) · Proteins: Structure, Function, and Bioinformatics · doi:10.1002/prot.10381 · Cited by 703
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Pierce, B. G., Wiehe, K., Hwang, H., Kim, B.-H., Vreven, T., & Weng, Z. (2014) · Bioinformatics · doi:10.1093/bioinformatics/btu097 · Cited by 1,760
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Alford, R. F., Leaver-Fay, A., Jeliazkov, J. R., O’Meara, M. J., DiMaio, F. P., Park, H., Shapovalov, M. V., Renfrew, P. D., Mulligan, V. K., Kappel, K., et al. (2017) · Journal of Chemical Theory and Computation · doi:10.1021/acs.jctc.7b00125 · Cited by 1,532
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Tranilast directly targets NLRP 3 to treat inflammasome‐driven diseases
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Metadata
- Authors
- Hwang, H., Vreven, T., Janin, J., & Weng, Z.
- Venue
- Proteins: Structure, Function, and Bioinformatics
- Publisher
- Wiley
- Published
- 2010-07-23
- Volume
- 78
- Issue
- 15
- Pages
- 3111-3114
- ISSN
- 0887-3585 (ISSN-L)
- 1097-0134
- OpenAlex
- W2915344963
- Cited by
- 476
- References
- 3
- FWCI
- 16.07
- Type
- journal article
- Language
- en
- Open access
- green
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