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Volumn 11, Issue , 2011, Pages

1,000 structures and more from the MCSG

Author keywords

[No Author keywords available]

Indexed keywords

AMINO ACID SEQUENCE; ARTICLE; GENE IDENTIFICATION; GENOME; PROTEIN FUNCTION; PROTEIN STRUCTURE; STRUCTURAL GENOMICS; BIOLOGY; CHEMISTRY; GENOMICS; METHODOLOGY; MUTATION; NUCLEOTIDE SEQUENCE; ONLINE SYSTEM; PROTEIN CONFORMATION; PROTEIN DATABASE; PROTEIN QUATERNARY STRUCTURE; PROTEIN SECONDARY STRUCTURE; PROTEIN TERTIARY STRUCTURE; PROTEOMICS;

EID: 78650972722     PISSN: None     EISSN: 14726807     Source Type: Journal    
DOI: 10.1186/1472-6807-11-2     Document Type: Article
Times cited : (15)

References (54)
  • 1
    • 36749007260 scopus 로고    scopus 로고
    • Update on the Protein Structure Initiative
    • 10.1016/j.str.2007.11.004. 18073099
    • Update on the Protein Structure Initiative. JC Norvell JM Berg, Structure 2007 15 1519 1522 10.1016/j.str.2007.11.004 18073099
    • (2007) Structure , vol.15 , pp. 1519-1522
    • Norvell, J.C.1    Berg, J.M.2
  • 3
    • 0028961335 scopus 로고
    • SCOP: A structural classification of proteins database for the investigation of sequences and structures
    • 7723011
    • SCOP: a structural classification of proteins database for the investigation of sequences and structures. AG Murzin SE Brenner T Hubbard C Chothia, J Mol Biol 1995 247 536 540 7723011
    • (1995) J Mol Biol , vol.247 , pp. 536-540
    • Murzin, A.G.1    Brenner, S.E.2    Hubbard, T.3    Chothia, C.4
  • 4
    • 18044397545 scopus 로고    scopus 로고
    • Progress of Structural Genomics Initiatives: An Analysis of Solved Target Structures
    • 10.1016/j.jmb.2005.03.037. 15854658
    • Progress of Structural Genomics Initiatives: An Analysis of Solved Target Structures. AE Todd RL Marsden JM Thornton CA Orengo, J Mol Biol 2005 348 1235 1260 10.1016/j.jmb.2005.03.037 15854658
    • (2005) J Mol Biol , vol.348 , pp. 1235-1260
    • Todd, A.E.1    Marsden, R.L.2    Thornton, J.M.3    Orengo, C.A.4
  • 5
    • 55449107518 scopus 로고    scopus 로고
    • Functional Coverage of the Human Genome by Existing Structures, Structural Genomics Targets, and Homology Models
    • 10.1371/journal.pcbi.0010031
    • Functional Coverage of the Human Genome by Existing Structures, Structural Genomics Targets, and Homology Models. L Xie PE Bourne, PLoS Comp Biol 2005 1 31 10.1371/journal.pcbi.0010031
    • (2005) PLoS Comp Biol , vol.1 , pp. 531
    • Xie, L.1    Bourne, P.E.2
  • 6
    • 0033963089 scopus 로고    scopus 로고
    • The ENZYME database in 2000
    • 10.1093/nar/28.1.304. 10592255
    • The ENZYME database in 2000. A Bairoch, Nucleic Acids Res 2000 28 304 305 10.1093/nar/28.1.304 10592255
    • (2000) Nucleic Acids Res , vol.28 , pp. 304-305
    • Bairoch, A.1
  • 7
    • 0034069495 scopus 로고    scopus 로고
    • Gene Ontology: Tool for the unification of biology
    • The Gene Ontology Consortium, 10.1038/75556. 10802651
    • Gene Ontology: tool for the unification of biology. The Gene Ontology Consortium, Nature Genet 2000 25 25 29 10.1038/75556 10802651
    • (2000) Nature Genet , vol.25 , pp. 25-29
  • 8
    • 10844244823 scopus 로고    scopus 로고
    • Implications of structural genomics target selection strategies: Pfam5000, whole genome, and random approaches
    • 10.1002/prot.20298. 15521074
    • Implications of structural genomics target selection strategies: Pfam5000, whole genome, and random approaches. JM Chandonia SE Brenner, Proteins 2005 58 166 179 10.1002/prot.20298 15521074
    • (2005) Proteins , vol.58 , pp. 166-179
    • Chandonia, J.M.1    Brenner, S.E.2
  • 12
    • 31144467558 scopus 로고    scopus 로고
    • The Impact of Structural Genomics: Expectations and Outcomes
    • 10.1126/science.1121018. 16424331
    • The Impact of Structural Genomics: Expectations and Outcomes. JM Chandonia SE Brenner, Science 2006 311 347 351 10.1126/science.1121018 16424331
    • (2006) Science , vol.311 , pp. 347-351
    • Chandonia, J.M.1    Brenner, S.E.2
  • 13
    • 33644872767 scopus 로고    scopus 로고
    • Comprehensive genome analysis of 203 genomes provides structural genomics with new insights into protein family space
    • 10.1093/nar/gkj494. 16481312
    • Comprehensive genome analysis of 203 genomes provides structural genomics with new insights into protein family space. RL Marsden D Lee M Maibaum C Yeats CA Orengo, Nucleic Acids Res 2006 34 1066 1080 10.1093/nar/gkj494 16481312
    • (2006) Nucleic Acids Res , vol.34 , pp. 1066-1080
    • Marsden, R.L.1    Lee, D.2    Maibaum, M.3    Yeats, C.4    Orengo, C.A.5
  • 14
    • 75549086991 scopus 로고    scopus 로고
    • Gene3D: Merging structure and function for a thousand genomes
    • 10.1093/nar/gkp987. 19906693
    • Gene3D: merging structure and function for a thousand genomes. J Lees C Yeats O Redfern A Clegg C Orengo, Nucleic Acids Res 2010 38 296 D300 10.1093/nar/gkp987 19906693
    • (2010) Nucleic Acids Res , vol.38
    • Lees, J.1    Yeats, C.2    Redfern, O.3    Clegg, A.4    Orengo, C.5
  • 16
    • 33847616971 scopus 로고    scopus 로고
    • Growth of novel protein structural data
    • 10.1073/pnas.0611678104. 17360626
    • Growth of novel protein structural data. M Levitt, Proc Natl Acad Sci USA 2007 104 3183 3188 10.1073/pnas.0611678104 17360626
    • (2007) Proc Natl Acad Sci USA , vol.104 , pp. 3183-3188
    • Levitt, M.1
  • 17
    • 34547769772 scopus 로고    scopus 로고
    • Novel leverage of structural genomics
    • 10.1038/nbt0807-849. 17687356
    • Novel leverage of structural genomics. J Liu GT Montelione B Rost, Nat Biotechnol 2007 25 849 851 10.1038/nbt0807-849 17687356
    • (2007) Nat Biotechnol , vol.25 , pp. 849-851
    • Liu, J.1    Montelione, G.T.2    Rost, B.3
  • 23
    • 78951482820 scopus 로고    scopus 로고
    • TOPSAN. http://www.topsan.org/
    • TOPSAN
  • 24
    • 22544441094 scopus 로고    scopus 로고
    • ProFunc: A server for predicting protein function from 3D structure
    • 10.1093/nar/gki414
    • ProFunc: a server for predicting protein function from 3D structure. RA Laskowski JD Watson JM Thornton, Nucleic Acids Res 2005 3 89 W93 10.1093/nar/gki414
    • (2005) Nucleic Acids Res , vol.3
    • Laskowski, R.A.1    Watson, J.D.2    Thornton, J.M.3
  • 26
    • 70049101758 scopus 로고    scopus 로고
    • FLORA: A novel method to predict protein function from structure in diverse superfamilies
    • 10.1371/journal.pcbi.1000485. 19714201
    • FLORA: a novel method to predict protein function from structure in diverse superfamilies. OC Redfern BH Dessailly TJ Dallman I Sillitoe CA Orengo, PloS Comput Biol 2009 5 1000485 10.1371/journal.pcbi.1000485 19714201
    • (2009) PloS Comput Biol , vol.5 , pp. 51000485
    • Redfern, O.C.1    Dessailly, B.H.2    Dallman, T.J.3    Sillitoe, I.4    Orengo, C.A.5
  • 28
    • 75849153303 scopus 로고    scopus 로고
    • The Universal Protein Resource (UniProt) in 2010
    • 10.1093/nar/gkp846. 19843607
    • The Universal Protein Resource (UniProt) in 2010. UniProt Consortium, Nucleic Acids Res 2010 38 142 D148 10.1093/nar/gkp846 19843607
    • (2010) Nucleic Acids Res , vol.38
    • Consortium, U.1
  • 29
    • 75549090213 scopus 로고    scopus 로고
    • KEGG for representation and analysis of molecular networks involving diseases and drugs
    • 10.1093/nar/gkp896. 19880382
    • KEGG for representation and analysis of molecular networks involving diseases and drugs. M Kanehisa S Goto M Furumichi M Tanabe M Hirakawa, Nucleic Acids Res 2010 38 355 D360 10.1093/nar/gkp896 19880382
    • (2010) Nucleic Acids Res , vol.38
    • Kanehisa, M.1    Goto, S.2    Furumichi, M.3    Tanabe, M.4    Hirakawa, M.5
  • 30
    • 33846113652 scopus 로고    scopus 로고
    • TIGRFAMs and Genome Properties: Tools for the assignment of molecular function and biological process in prokaryotic genomes
    • 10.1093/nar/gkl1043. 17151080
    • TIGRFAMs and Genome Properties: tools for the assignment of molecular function and biological process in prokaryotic genomes. JD Selengut DH Haft T Davidsen A Ganapathy M Gwinn-Giglio WC Nelson AR Richter O White, Nucleic Acids Res 2007 35 260 D264 10.1093/nar/gkl1043 17151080
    • (2007) Nucleic Acids Res , vol.35
    • Selengut, J.D.1    Haft, D.H.2    Davidsen, T.3    Ganapathy, A.4    Gwinn-Giglio, M.5    Nelson, W.C.6    Richter, A.R.7    White, O.8
  • 31
    • 58149194624 scopus 로고    scopus 로고
    • SMART 6: Recent updates and new developments
    • 10.1093/nar/gkn808. 18978020
    • SMART 6: recent updates and new developments. I Letunic T Doerks P Bork, Nucleic Acids Res 2009 37 229 D232 10.1093/nar/gkn808 18978020
    • (2009) Nucleic Acids Res , vol.37
    • Letunic, I.1    Doerks, T.2    Bork, P.3
  • 35
    • 0032438987 scopus 로고    scopus 로고
    • Hidden Markov models for detecting remote protein homologies
    • 10.1093/bioinformatics/14.10.846. 9927713
    • Hidden Markov models for detecting remote protein homologies. K Karplus C Barrett R Hughey, Bioinformatics 1998 14 846 856 10.1093/bioinformatics/14.10. 846 9927713
    • (1998) Bioinformatics , vol.14 , pp. 846-856
    • Karplus, K.1    Barrett, C.2    Hughey, R.3
  • 36
    • 55749113550 scopus 로고    scopus 로고
    • Profile Comparer: A program for scoring and aligning profile hidden Markov models
    • 10.1093/bioinformatics/btn504. 18845584
    • Profile Comparer: a program for scoring and aligning profile hidden Markov models. M Madera, Bioinformatics 2008 24 2630 2631 10.1093/ bioinformatics/btn504 18845584
    • (2008) Bioinformatics , vol.24 , pp. 2630-2631
    • Madera, M.1
  • 37
    • 1842781469 scopus 로고    scopus 로고
    • Protein structure comparison in 3D based on secondary structure matching (SSM) followed by C alignment, scored by a new structural similarity function
    • Vienna Kungl AJ, Kungl PJ
    • Protein structure comparison in 3D based on secondary structure matching (SSM) followed by C alignment, scored by a new structural similarity function. E Krissinel K Henrick, Proceedings of the 5th International Conference on Molecular Structural Biology Vienna, Kungl AJ, Kungl PJ, 2003 88
    • (2003) Proceedings of the 5th International Conference on Molecular Structural Biology , pp. 88
    • Krissinel, E.1    Henrick, K.2
  • 38
    • 22544486576 scopus 로고    scopus 로고
    • Protein function prediction using local 3D templates
    • 10.1016/j.jmb.2005.05.067. 16019027
    • Protein function prediction using local 3D templates. RA Laskowski JD Watson JM Thornton, J Mol Biol 2005 351 614 626 10.1016/j.jmb.2005.05.067 16019027
    • (2005) J Mol Biol , vol.351 , pp. 614-626
    • Laskowski, R.A.1    Watson, J.D.2    Thornton, J.M.3
  • 39
    • 0141850386 scopus 로고    scopus 로고
    • An algorithm for constraint-based structural template matching: Application to 3D templates with statistical analysis
    • 10.1093/bioinformatics/btg226. 12967960
    • An algorithm for constraint-based structural template matching: application to 3D templates with statistical analysis. JA Barker JM Thornton, Bioinformatics 2003 19 1644 1649 10.1093/bioinformatics/btg226 12967960
    • (2003) Bioinformatics , vol.19 , pp. 1644-1649
    • Barker, J.A.1    Thornton, J.M.2
  • 40
    • 0043180474 scopus 로고    scopus 로고
    • PISCES: A protein sequence culling server
    • 10.1093/bioinformatics/btg224. 12912846
    • PISCES: a protein sequence culling server. G Wang RL Dunbrack Jr, Bioinformatics 2003 19 1589 1591 10.1093/bioinformatics/btg224 12912846
    • (2003) Bioinformatics , vol.19 , pp. 1589-1591
    • Wang, G.1    Dunbrack Jr., R.L.2
  • 41
    • 0023989064 scopus 로고
    • Improved tools for biological sequence comparison
    • 10.1073/pnas.85.8.2444. 3162770
    • Improved tools for biological sequence comparison. WR Pearson DJ Lipman, Proc Natl Acad Sci USA 1988 85 2444 2448 10.1073/pnas.85.8.2444 3162770
    • (1988) Proc Natl Acad Sci USA , vol.85 , pp. 2444-2448
    • Pearson, W.R.1    Lipman, D.J.2
  • 42
    • 58149187898 scopus 로고    scopus 로고
    • PDBsum new things
    • 10.1093/nar/gkn860. 18996896
    • PDBsum new things. RA Laskowski, Nucleic Acids Res 2009 37 355 D359 10.1093/nar/gkn860 18996896
    • (2009) Nucleic Acids Res , vol.37
    • Laskowski, R.A.1
  • 44
    • 0345864027 scopus 로고    scopus 로고
    • The Catalytic Site Atlas: A resource of catalytic sites and residues identified in enzymes using structural data
    • 10.1093/nar/gkh028. 14681376
    • The Catalytic Site Atlas: a resource of catalytic sites and residues identified in enzymes using structural data. CT Porter GJ Bartlett JM Thornton, Nucleic Acids Res 2004 32 129 D133 10.1093/nar/gkh028 14681376
    • (2004) Nucleic Acids Res , vol.32
    • Porter, C.T.1    Bartlett, G.J.2    Thornton, J.M.3
  • 45
    • 0031762430 scopus 로고    scopus 로고
    • Sequences annotated by structure: A tool to facilitate the use of structural information in sequence analysis
    • 10.1093/protein/11.10.855
    • Sequences annotated by structure: A tool to facilitate the use of structural information in sequence analysis. D Milburn RA Laskowski JM Thornton, Prot Eng 1998 11 855 859 10.1093/protein/11.10.855
    • (1998) Prot Eng , vol.11 , pp. 855-859
    • Milburn, D.1    Laskowski, R.A.2    Thornton, J.M.3
  • 46
    • 33745634395 scopus 로고    scopus 로고
    • Cd-hit: A fast program for clustering and comparing large sets of protein or nucleotide sequences
    • 10.1093/bioinformatics/btl158. 16731699
    • Cd-hit: a fast program for clustering and comparing large sets of protein or nucleotide sequences. W Li A Godzik, Bioinformatics 2006 22 1658 1659 10.1093/bioinformatics/btl158 16731699
    • (2006) Bioinformatics , vol.22 , pp. 1658-1659
    • Li, W.1    Godzik, A.2
  • 47
    • 36949008379 scopus 로고    scopus 로고
    • CATHEDRAL: A fast and effective algorithm to predict folds and domain boundaries from multidomain protein structures
    • 10.1371/journal.pcbi.0030232. 18052539
    • CATHEDRAL: a fast and effective algorithm to predict folds and domain boundaries from multidomain protein structures. OC Redfern A Harrison T Dallman FM Pearl CA Orengo, PLoS Comput Biol 2007 3 232 10.1371/journal.pcbi.0030232 18052539
    • (2007) PLoS Comput Biol , vol.3 , pp. 5232
    • Redfern, O.C.1    Harrison, A.2    Dallman, T.3    Pearl, F.M.4    Orengo, C.A.5
  • 48
    • 0029948001 scopus 로고    scopus 로고
    • SSAP: Sequential structure alignment program for protein structure comparison
    • full-text. 8743709
    • SSAP: sequential structure alignment program for protein structure comparison. CA Orengo WR Taylor, Methods Enzymol 1996 266 617 635 full-text 8743709
    • (1996) Methods Enzymol , vol.266 , pp. 617-635
    • Orengo, C.A.1    Taylor, W.R.2
  • 49
    • 13444279981 scopus 로고    scopus 로고
    • Comprehensive evaluation of protein structure alignment methods: Scoring by geometric measures
    • 10.1016/j.jmb.2004.12.032. 15701525
    • Comprehensive evaluation of protein structure alignment methods: scoring by geometric measures. R Kolodny P Koehl M Levitt, J Mol Biol 2005 346 1173 1188 10.1016/j.jmb.2004.12.032 15701525
    • (2005) J Mol Biol , vol.346 , pp. 1173-1188
    • Kolodny, R.1    Koehl, P.2    Levitt, M.3
  • 50
    • 58649091132 scopus 로고    scopus 로고
    • Characterization of high-order oligomerization and energetics in diphtheria toxin
    • UCLA
    • Characterization of high-order oligomerization and energetics in diphtheria toxin. B Steere D Eisenberg, PhD Thesis UCLA 2001
    • (2001) PhD Thesis
    • Steere, B.1    Eisenberg, D.2
  • 51
    • 13444274564 scopus 로고    scopus 로고
    • Structure-function analysis of water-soluble inhibitors of the catalytic domain of exotoxin A from Pseudomonas aeruginosa
    • 10.1042/BJ20041480. 15458385
    • Structure-function analysis of water-soluble inhibitors of the catalytic domain of exotoxin A from Pseudomonas aeruginosa. SP Yates PL Taylor R Jørgensen D Ferrraris J Zhang GR Andersen AR Merrill, Biochem J 2005 385 667 675 10.1042/BJ20041480 15458385
    • (2005) Biochem J , vol.385 , pp. 667-675
    • Yates, S.P.1    Taylor, P.L.2    Jørgensen, R.3    Ferrraris, D.4    Zhang, J.5    Andersen, G.R.6    Merrill, A.R.7
  • 53
    • 0031573776 scopus 로고    scopus 로고
    • Bacillus cereus and its food poisoning toxins
    • 10.1111/j.1574-6968.1997.tb12776.x. 9435100
    • Bacillus cereus and its food poisoning toxins. PE Granum T Lund, FEMS Microbiol Lett 1997 157 223 228 10.1111/j.1574-6968.1997.tb12776.x 9435100
    • (1997) FEMS Microbiol Lett , vol.157 , pp. 223-228
    • Granum, P.E.1    Lund, T.2


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