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Outcome of the First wwPDB Hybrid/Integrative Methods Task Force Workshop.
Sali A, Berman HM, Schwede T, Trewhella J, Kleywegt G, Burley SK, Markley J, Nakamura H, Adams P, Bonvin AM, Chiu W, Peraro MD, Di Maio F, Ferrin TE, Grünewald K, Gutmanas A, Henderson R, Hummer G, Iwasaki K, Johnson G, Lawson CL, Meiler J, Marti-Renom MA, Montelione GT, Nilges M, Nussinov R, Patwardhan A, Rappsilber J, Read RJ, Saibil H, Schröder GF, Schwieters CD, Seidel CA, Svergun D, Topf M, Ulrich EL, Velankar S, Westbrook JD. Sali A, et al. Among authors: nakamura h. Structure. 2015 Jul 7;23(7):1156-67. doi: 10.1016/j.str.2015.05.013. Epub 2015 Jun 18. Structure. 2015. PMID: 26095030 Free PMC article.
Announcing the worldwide Protein Data Bank.
Berman H, Henrick K, Nakamura H. Berman H, et al. Among authors: nakamura h. Nat Struct Biol. 2003 Dec;10(12):980. doi: 10.1038/nsb1203-980. Nat Struct Biol. 2003. PMID: 14634627 No abstract available.
The worldwide Protein Data Bank (wwPDB): ensuring a single, uniform archive of PDB data.
Berman H, Henrick K, Nakamura H, Markley JL. Berman H, et al. Among authors: nakamura h. Nucleic Acids Res. 2007 Jan;35(Database issue):D301-3. doi: 10.1093/nar/gkl971. Epub 2006 Nov 16. Nucleic Acids Res. 2007. PMID: 17142228 Free PMC article.
The founding members of the wwPDB are RCSB PDB (USA), MSD-EBI (Europe) and PDBj (Japan) [H.M. Berman, K. Henrick and H. Nakamura (2003) Nature Struct. Biol., 10, 980]. ...
The founding members of the wwPDB are RCSB PDB (USA), MSD-EBI (Europe) and PDBj (Japan) [H.M. Berman, K. Henrick and H. Nak …
Realism about PDB.
Berman HM, Henrick K, Nakamura H, Markley J, Bourne PE, Westbrook J. Berman HM, et al. Among authors: nakamura h. Nat Biotechnol. 2007 Aug;25(8):845-6; author reply 846. doi: 10.1038/nbt0807-845. Nat Biotechnol. 2007. PMID: 17687352 No abstract available.
Remediation of the protein data bank archive.
Henrick K, Feng Z, Bluhm WF, Dimitropoulos D, Doreleijers JF, Dutta S, Flippen-Anderson JL, Ionides J, Kamada C, Krissinel E, Lawson CL, Markley JL, Nakamura H, Newman R, Shimizu Y, Swaminathan J, Velankar S, Ory J, Ulrich EL, Vranken W, Westbrook J, Yamashita R, Yang H, Young J, Yousufuddin M, Berman HM. Henrick K, et al. Among authors: nakamura h. Nucleic Acids Res. 2008 Jan;36(Database issue):D426-33. doi: 10.1093/nar/gkm937. Epub 2007 Dec 11. Nucleic Acids Res. 2008. PMID: 18073189 Free PMC article.
Data deposition and annotation at the worldwide protein data bank.
Dutta S, Burkhardt K, Swaminathan GJ, Kosada T, Henrick K, Nakamura H, Berman HM. Dutta S, et al. Among authors: nakamura h. Methods Mol Biol. 2008;426:81-101. doi: 10.1007/978-1-60327-058-8_5. Methods Mol Biol. 2008. PMID: 18542858
Data deposition and annotation at the worldwide protein data bank.
Dutta S, Burkhardt K, Young J, Swaminathan GJ, Matsuura T, Henrick K, Nakamura H, Berman HM. Dutta S, et al. Among authors: nakamura h. Mol Biotechnol. 2009 May;42(1):1-13. doi: 10.1007/s12033-008-9127-7. Epub 2008 Dec 10. Mol Biotechnol. 2009. PMID: 19082769 Review.
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