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Towards a comprehensive structural coverage of completed genomes: a structural genomics viewpoint.

Marsden RL, Lewis TA, Orengo CA.

BMC Bioinformatics. 2007 Mar 9;8:86.PMID: 17349043 [PubMed - indexed for MEDLINE]Related articlesFree article

Comprehensive genome analysis of 203 genomes provides structural genomics with new insights into protein family space.

Marsden RL, Lee D, Maibaum M, Yeats C, Orengo CA.

Nucleic Acids Res. 2006 Feb 15;34(3):1066-80. Print 2006.PMID: 16481312 [PubMed - indexed for MEDLINE]Related articlesFree article

Progress of structural genomics initiatives: an analysis of solved target structures.

Todd AE, Marsden RL, Thornton JM, Orengo CA.

J Mol Biol. 2005 May 20;348(5):1235-60. Epub 2005 Apr 2. Erratum in: J Mol Biol. 2005 Oct 28;353(3):760. PMID: 15854658 [PubMed - indexed for MEDLINE]Related articles

PSI-2: structural genomics to cover protein domain family space.

Dessailly BH, Nair R, Jaroszewski L, Fajardo JE, Kouranov A, Lee D, Fiser A, Godzik A, Rost B, Orengo C.

Structure. 2009 Jun 10;17(6):869-81. Review.PMID: 19523904 [PubMed - indexed for MEDLINE]Related articles

SUPFAM--a database of potential protein superfamily relationships derived by comparing sequence-based and structure-based families: implications for structural genomics and function annotation in genomes.

Pandit SB, Gosar D, Abhiman S, Sujatha S, Dixit SS, Mhatre NS, Sowdhamini R, Srinivasan N.

Nucleic Acids Res. 2002 Jan 1;30(1):289-93.PMID: 11752317 [PubMed - indexed for MEDLINE]Related articlesFree article

Implications of structural genomics target selection strategies: Pfam5000, whole genome, and random approaches.

Chandonia JM, Brenner SE.

Proteins. 2005 Jan 1;58(1):166-79.PMID: 15521074 [PubMed - indexed for MEDLINE]Related articles

Exploring dynamics of protein structure determination and homology-based prediction to estimate the number of superfamilies and folds.

Sadreyev RI, Grishin NV.

BMC Struct Biol. 2006 Mar 20;6:6.PMID: 16549009 [PubMed - indexed for MEDLINE]Related articlesFree article

Functional coverage of the human genome by existing structures, structural genomics targets, and homology models.

Xie L, Bourne PE.

PLoS Comput Biol. 2005 Aug;1(3):e31. Epub 2005 Aug 19.PMID: 16118666 [PubMed - indexed for MEDLINE]Related articlesFree article

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.

Nucleic Acids Res. 2005 Jan 1;33(Database issue):D247-51.PMID: 15608188 [PubMed - indexed for MEDLINE]Related articlesFree article

Automatic target selection for structural genomics on eukaryotes.

Liu J, Hegyi H, Acton TB, Montelione GT, Rost B.

Proteins. 2004 Aug 1;56(2):188-200.PMID: 15211504 [PubMed - indexed for MEDLINE]Related articles

Identification and distribution of protein families in 120 completed genomes using Gene3D.

Lee D, Grant A, Marsden RL, Orengo C.

Proteins. 2005 May 15;59(3):603-15.PMID: 15768405 [PubMed - indexed for MEDLINE]Related articles

Gene3D: comprehensive structural and functional annotation of genomes.

Yeats C, Lees J, Reid A, Kellam P, Martin N, Liu X, Orengo C.

Nucleic Acids Res. 2008 Jan;36(Database issue):D414-8. Epub 2007 Nov 21.PMID: 18032434 [PubMed - indexed for MEDLINE]Related articlesFree article

Target selection for structural genomics: an overview.

Marsden RL, Orengo CA.

Methods Mol Biol. 2008;426:3-25. Review.PMID: 18542854 [PubMed - indexed for MEDLINE]Related articles

Curation of viral genomes: challenges, applications and the way forward.

Kulkarni-Kale U, Bhosle SG, Manjari GS, Joshi M, Bansode S, Kolaskar AS.

BMC Bioinformatics. 2006 Dec 18;7 Suppl 5:S12.PMID: 17254296 [PubMed - indexed for MEDLINE]Related articlesFree article

Target space for structural genomics revisited.

Liu J, Rost B.

Bioinformatics. 2002 Jul;18(7):922-33.PMID: 12117789 [PubMed - indexed for MEDLINE]Related articlesFree article

Structure-based functional inference in structural genomics.

Kim SH, Shin DH, Choi IG, Schulze-Gahmen U, Chen S, Kim R.

J Struct Funct Genomics. 2003;4(2-3):129-35. Review.PMID: 14649297 [PubMed - indexed for MEDLINE]Related articles

Structural genomics is the largest contributor of novel structural leverage.

Nair R, Liu J, Soong TT, Acton TB, Everett JK, Kouranov A, Fiser A, Godzik A, Jaroszewski L, Orengo C, Montelione GT, Rost B.

J Struct Funct Genomics. 2009 Apr;10(2):181-91. Epub 2009 Feb 5.PMID: 19194785 [PubMed - indexed for MEDLINE]Related articlesFree article

Protein family clustering for structural genomics.

Yan Y, Moult J.

J Mol Biol. 2005 Oct 28;353(3):744-59. Epub 2005 Sep 9.PMID: 16185712 [PubMed - indexed for MEDLINE]Related articles

Exploiting protein structure data to explore the evolution of protein function and biological complexity.

Marsden RL, Ranea JA, Sillero A, Redfern O, Yeats C, Maibaum M, Lee D, Addou S, Reeves GA, Dallman TJ, Orengo CA.

Philos Trans R Soc Lond B Biol Sci. 2006 Mar 29;361(1467):425-40. Review.PMID: 16524831 [PubMed - indexed for MEDLINE]Related articlesFree article

Metalloproteomics: high-throughput structural and functional annotation of proteins in structural genomics.

Shi W, Zhan C, Ignatov A, Manjasetty BA, Marinkovic N, Sullivan M, Huang R, Chance MR.

Structure. 2005 Oct;13(10):1473-86.PMID: 16216579 [PubMed - indexed for MEDLINE]Related articles