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Evolution of function in protein superfamilies, from a structural perspective.
Todd AE, Orengo CA, Thornton JM. Todd AE, et al. J Mol Biol. 2001 Apr 6;307(4):1113-43. doi: 10.1006/jmbi.2001.4513. J Mol Biol. 2001. PMID: 11286560
The CATH Domain Structure Database and related resources Gene3D and DHS provide comprehensive domain family information for genome analysis.
Pearl F, Todd A, Sillitoe I, Dibley M, Redfern O, Lewis T, Bennett C, Marsden R, Grant A, Lee D, Akpor A, Maibaum M, Harrison A, Dallman T, Reeves G, Diboun I, Addou S, Lise S, Johnston C, Sillero A, Thornton J, Orengo C. Pearl F, et al. Nucleic Acids Res. 2005 Jan 1;33(Database issue):D247-51. doi: 10.1093/nar/gki024. Nucleic Acids Res. 2005. PMID: 15608188 Free PMC article.
The CATH hierarchy revisited-structural divergence in domain superfamilies and the continuity of fold space.
Cuff A, Redfern OC, Greene L, Sillitoe I, Lewis T, Dibley M, Reid A, Pearl F, Dallman T, Todd A, Garratt R, Thornton J, Orengo C. Cuff A, et al. Structure. 2009 Aug 12;17(8):1051-62. doi: 10.1016/j.str.2009.06.015. Structure. 2009. PMID: 19679085 Free PMC article.
A rapid classification protocol for the CATH Domain Database to support structural genomics.
Pearl FM, Martin N, Bray JE, Buchan DW, Harrison AP, Lee D, Reeves GA, Shepherd AJ, Sillitoe I, Todd AE, Thornton JM, Orengo CA. Pearl FM, et al. Nucleic Acids Res. 2001 Jan 1;29(1):223-7. doi: 10.1093/nar/29.1.223. Nucleic Acids Res. 2001. PMID: 11125098 Free PMC article.
., Todd,A.E., Pearl,F.M.G., Thornton,J.M. and Orengo,C.A. (2000) Protein Eng., 13, 153-165], which provides multiple structural alignments and functional information to assist in assigning new relatives, has also been expanded recently and now includes information for 903 …
., Todd,A.E., Pearl,F.M.G., Thornton,J.M. and Orengo,C.A. (2000) Protein Eng., 13, 153-165], which provides multiple structural align …
From structure to function: approaches and limitations.
Thornton JM, Todd AE, Milburn D, Borkakoti N, Orengo CA. Thornton JM, et al. Nat Struct Biol. 2000 Nov;7 Suppl:991-4. doi: 10.1038/80784. Nat Struct Biol. 2000. PMID: 11104008 Review.
Using the CATH domain database to assign structures and functions to the genome sequences.
Pearl F, Todd AE, Bray JE, Martin AC, Salamov AA, Suwa M, Swindells MB, Thornton JM, Orengo CA. Pearl F, et al. Biochem Soc Trans. 2000 Feb;28(2):269-75. doi: 10.1042/bst0280269. Biochem Soc Trans. 2000. PMID: 10816141
Assigning genomic sequences to CATH.
Pearl FM, Lee D, Bray JE, Sillitoe I, Todd AE, Harrison AP, Thornton JM, Orengo CA. Pearl FM, et al. Nucleic Acids Res. 2000 Jan 1;28(1):277-82. doi: 10.1093/nar/28.1.277. Nucleic Acids Res. 2000. PMID: 10592246 Free PMC article.
Protein folds, functions and evolution.
Thornton JM, Orengo CA, Todd AE, Pearl FM. Thornton JM, et al. J Mol Biol. 1999 Oct 22;293(2):333-42. doi: 10.1006/jmbi.1999.3054. J Mol Biol. 1999. PMID: 10529349 Review.
Evolution of protein function, from a structural perspective.
Todd AE, Orengo CA, Thornton JM. Todd AE, et al. Curr Opin Chem Biol. 1999 Oct;3(5):548-56. doi: 10.1016/s1367-5931(99)00007-1. Curr Opin Chem Biol. 1999. PMID: 10508675 Review.
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