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ModelCIF: An Extension of PDBx/mmCIF Data Representation for Computed Structure Models.
Vallat B, Tauriello G, Bienert S, Haas J, Webb BM, Žídek A, Zheng W, Peisach E, Piehl DW, Anischanka I, Sillitoe I, Tolchard J, Varadi M, Baker D, Orengo C, Zhang Y, Hoch JC, Kurisu G, Patwardhan A, Velankar S, Burley SK, Sali A, Schwede T, Berman HM, Westbrook JD. Vallat B, et al. Among authors: webb bm. J Mol Biol. 2023 Jul 15;435(14):168021. doi: 10.1016/j.jmb.2023.168021. Epub 2023 Feb 23. J Mol Biol. 2023. PMID: 36828268 Free article.
Comparative protein structure modeling using Modeller.
Eswar N, Webb B, Marti-Renom MA, Madhusudhan MS, Eramian D, Shen MY, Pieper U, Sali A. Eswar N, et al. Curr Protoc Bioinformatics. 2006 Oct;Chapter 5:Unit-5.6. doi: 10.1002/0471250953.bi0506s15. Curr Protoc Bioinformatics. 2006. PMID: 18428767 Free PMC article.
Comparative protein structure modeling using MODELLER.
Eswar N, Webb B, Marti-Renom MA, Madhusudhan MS, Eramian D, Shen MY, Pieper U, Sali A. Eswar N, et al. Curr Protoc Protein Sci. 2007 Nov;Chapter 2:Unit 2.9. doi: 10.1002/0471140864.ps0209s50. Curr Protoc Protein Sci. 2007. PMID: 18429317
Protein structure modeling with MODELLER.
Eswar N, Eramian D, Webb B, Shen MY, Sali A. Eswar N, et al. Methods Mol Biol. 2008;426:145-59. doi: 10.1007/978-1-60327-058-8_8. Methods Mol Biol. 2008. PMID: 18542861
Molecular docking screens using comparative models of proteins.
Fan H, Irwin JJ, Webb BM, Klebe G, Shoichet BK, Sali A. Fan H, et al. Among authors: webb bm. J Chem Inf Model. 2009 Nov;49(11):2512-27. doi: 10.1021/ci9003706. J Chem Inf Model. 2009. PMID: 19845314 Free PMC article.
ModBase, a database of annotated comparative protein structure models, and associated resources.
Pieper U, Webb BM, Barkan DT, Schneidman-Duhovny D, Schlessinger A, Braberg H, Yang Z, Meng EC, Pettersen EF, Huang CC, Datta RS, Sampathkumar P, Madhusudhan MS, Sjölander K, Ferrin TE, Burley SK, Sali A. Pieper U, et al. Among authors: webb bm. Nucleic Acids Res. 2011 Jan;39(Database issue):D465-74. doi: 10.1093/nar/gkq1091. Epub 2010 Nov 19. Nucleic Acids Res. 2011. PMID: 21097780 Free PMC article.
62 results