-
1
-
-
0033954256
-
The Protein Data Bank
-
Berman,H.M., Westbrook,J., Feng,Z., Gilliland,G., Bhat,T.N., Weissig,H., Shindyalov,I.N. and Bourne,P.E. (2000) The Protein Data Bank. Nucleic Acids Res., 28, 235-242.
-
(2000)
Nucleic Acids Res.
, vol.28
, pp. 235-242
-
-
Berman, H.M.1
Westbrook, J.2
Feng, Z.3
Gilliland, G.4
Bhat, T.N.5
Weissig, H.6
Shindyalov, I.N.7
Bourne, P.E.8
-
2
-
-
4344592748
-
The impact of structural genomics on the Protein Data Bank
-
Berman,H.M. and Westbrook,J.D. (2004) The impact of structural genomics on the Protein Data Bank. Am. J. Pharmacogenomics, 4, 247-252.
-
(2004)
Am. J. Pharmacogenomics
, vol.4
, pp. 247-252
-
-
Berman, H.M.1
Westbrook, J.D.2
-
4
-
-
0242292013
-
From protein structure to biochemical function?
-
Laskowski,R.A., Watson,J.D. and Thornton,J.M. (2003) From protein structure to biochemical function? J. Struct. Funct. Genomics, 4, 167-177.
-
(2003)
J. Struct. Funct. Genomics
, vol.4
, pp. 167-177
-
-
Laskowski, R.A.1
Watson, J.D.2
Thornton, J.M.3
-
5
-
-
0030801002
-
Gapped BLAST and PSI-BLAST: A new generation of protein database search programs
-
Altschul,S.F., Madden,T.L., Schaffer,A.A., Zhang,J., Zhang,Z., Miller,W. and Lipman,D.J. (1997) Gapped BLAST and PSI-BLAST: A new generation of protein database search programs. Nucleic Acids Res., 25, 3389-3402.
-
(1997)
Nucleic Acids Res.
, vol.25
, pp. 3389-3402
-
-
Altschul, S.F.1
Madden, T.L.2
Schaffer, A.A.3
Zhang, J.4
Zhang, Z.5
Miller, W.6
Lipman, D.J.7
-
6
-
-
9144232912
-
UniProt: The Universal Protein knowledgebase
-
Apweiler,R., Bairoch,A., Wu,C.H., Barker,W.C., Boeckmann,B., Ferro,S., Gasteiger,E., Huang,H., Lopez,R., Magrane,M. et al. (2004) UniProt: The Universal Protein knowledgebase. Nucleic Acids Res., 32, D115-D119.
-
(2004)
Nucleic Acids Res.
, vol.32
-
-
Apweiler, R.1
Bairoch, A.2
Wu, C.H.3
Barker, W.C.4
Boeckmann, B.5
Ferro, S.6
Gasteiger, E.7
Huang, H.8
Lopez, R.9
Magrane, M.10
-
7
-
-
0035914476
-
Conservation helps to identify biologically relevant crystal contacts
-
Valdar,W.S.J. and Thornton,J.M. (2001) Conservation helps to identify biologically relevant crystal contacts. J. Mol. Biol., 313, 399-416.
-
(2001)
J. Mol. Biol.
, vol.313
, pp. 399-416
-
-
Valdar, W.S.J.1
Thornton, J.M.2
-
8
-
-
0037251964
-
The InterPro Database, 2003 brings increased coverage and new features
-
Mulder,N.J., Apweiler,R., Attwood,T.K., Bairoch,A., Barrell,D., Bateman,A., Binns,D., Biswas,M., Bradley,P., Bork,P. et al. (2003) The InterPro Database, 2003 brings increased coverage and new features. Nucleic Acids Res., 31, 315-318.
-
(2003)
Nucleic Acids Res.
, vol.31
, pp. 315-318
-
-
Mulder, N.J.1
Apweiler, R.2
Attwood, T.K.3
Bairoch, A.4
Barrell, D.5
Bateman, A.6
Binns, D.7
Biswas, M.8
Bradley, P.9
Bork, P.10
-
9
-
-
0034800374
-
InterProScan: An integration platform for the signature-recognition methods in Inter Pro
-
Zdobnov,E.M. and Apweiler,R. (2001) InterProScan: An integration platform for the signature-recognition methods in Inter Pro. Bioinformatics, 17, 847-848.
-
(2001)
Bioinformatics
, vol.17
, pp. 847-848
-
-
Zdobnov, E.M.1
Apweiler, R.2
-
10
-
-
0347125294
-
The SUPERFAMILY database in 2004: Additions and improvements
-
Madera,M., Vogel,C., Kummerfeld,S.K., Chothia,C. and Gough,J. (2004) The SUPERFAMILY database in 2004: Additions and improvements. Nucleic Acids Res., 32, 13235-13239.
-
(2004)
Nucleic Acids Res.
, vol.32
, pp. 13235-13239
-
-
Madera, M.1
Vogel, C.2
Kummerfeld, S.K.3
Chothia, C.4
Gough, J.5
-
11
-
-
1842781469
-
Protein structure comparison in 3D based on secondary structure matching (SSM) followedby Cα alignment, scored by a new structural similarity function
-
Kungl,A.J. and Kungl,P.J. (eds), 3-7 September. Vienna, Austria
-
Krissinel,E. and Henrick,K. (2003) Protein structure comparison in 3D based on secondary structure matching (SSM) followedby Cα alignment, scored by a new structural similarity function. In Kungl,A.J. and Kungl,P.J. (eds), Proceedings of the 5th International Conference on Molecular Structural Biology, 3-7 September. Vienna, Austria, p. 88.
-
(2003)
Proceedings of the 5th International Conference on Molecular Structural Biology
, pp. 88
-
-
Krissinel, E.1
Henrick, K.2
-
12
-
-
0028881975
-
SURFNET: A program for visualizing molecular surfaces, cavities and intermolecular interactions
-
Laskowski,R.A. (1995) SURFNET: A program for visualizing molecular surfaces, cavities and intermolecular interactions. J. Mol. Graph., 13, 323-330.
-
(1995)
J. Mol. Graph.
, vol.13
, pp. 323-330
-
-
Laskowski, R.A.1
-
14
-
-
0036468670
-
Evolutionary predictions of binding surfaces and interactions
-
Lichtarge,O. and Sowa,M.E. (2002) Evolutionary predictions of binding surfaces and interactions. Curr. Opin. Struct. Biol., 12, 21-27.
-
(2002)
Curr. Opin. Struct. Biol.
, vol.12
, pp. 21-27
-
-
Lichtarge, O.1
Sowa, M.E.2
-
15
-
-
0036300444
-
Structural clusters of evolutionary trace residues are statistically significant and common in proteins
-
Madabushi,S., Yao,H., Marsh,M., Kristensen,D.M., Philippi,A., Sowa,M.E. and Lichtarge,O. (2002) Structural clusters of evolutionary trace residues are statistically significant and common in proteins. J. Mol. Biol., 316, 139-154.
-
(2002)
J. Mol. Biol.
, vol.316
, pp. 139-154
-
-
Madabushi, S.1
Yao, H.2
Marsh, M.3
Kristensen, D.M.4
Philippi, A.5
Sowa, M.E.6
Lichtarge, O.7
-
16
-
-
2542445427
-
ConSurf: Identification of functional regions in proteins by surface-mapping of phylogenetic information
-
Glaser,F., Pupko,T., Paz,I., Bell,R.E., Bechor,D., Martz,E. and Ben-Tal,N. (2003) ConSurf: Identification of functional regions in proteins by surface-mapping of phylogenetic information. Bioinformatics, 19, 163-164.
-
(2003)
Bioinformatics
, vol.19
, pp. 163-164
-
-
Glaser, F.1
Pupko, T.2
Paz, I.3
Bell, R.E.4
Bechor, D.5
Martz, E.6
Ben-Tal, N.7
-
17
-
-
0029913807
-
An evolutionary trace method defines binding surfaces common to protein families
-
Lichtarge,O., Bourne,H.R. and Cohen,F.E. (1996) An evolutionary trace method defines binding surfaces common to protein families. J. Mol. Biol., 257, 342-358.
-
(1996)
J. Mol. Biol.
, vol.257
, pp. 342-358
-
-
Lichtarge, O.1
Bourne, H.R.2
Cohen, F.E.3
-
18
-
-
0037930733
-
Using structural motif templates to identify proteins with DNA binding function
-
Jones,S., Barker,J.A., Nobeli,I. and Thornton,J.M. (2003) Using structural motif templates to identify proteins with DNA binding function. Nucleic Acids Res., 31, 2811-2823.
-
(2003)
Nucleic Acids Res.
, vol.31
, pp. 2811-2823
-
-
Jones, S.1
Barker, J.A.2
Nobeli, I.3
Thornton, J.M.4
-
19
-
-
0036293842
-
A novel main-chain anion-binding site in proteins: The nest. A particular combination of phi, psi values in successive residues gives rise to anion-binding sites that occur commonly and are found often at functionally important regions
-
Watson,J.D. and Milner-White,E.J. (2002) A novel main-chain anion-binding site in proteins: The nest. A particular combination of phi, psi values in successive residues gives rise to anion-binding sites that occur commonly and are found often at functionally important regions. J. Mol. Biol., 315, 171-182.
-
(2002)
J. Mol. Biol.
, vol.315
, pp. 171-182
-
-
Watson, J.D.1
Milner-White, E.J.2
-
20
-
-
0036289154
-
The conformations of polypeptide chains where the main-chain parts of successive residues are enantiomeric. Their occurrence in cation and anion-binding regions of proteins
-
Watson,J.D. and Milner-White,E.J. (2002) The conformations of polypeptide chains where the main-chain parts of successive residues are enantiomeric. Their occurrence in cation and anion-binding regions of proteins. J. Mol. Biol., 315, 183-191.
-
(2002)
J. Mol. Biol.
, vol.315
, pp. 183-191
-
-
Watson, J.D.1
Milner-White, E.J.2
-
21
-
-
0141850386
-
An algorithm for constraint-based structural template matching: Application to 3D templates with statistical analysis
-
Barker,J.A. and Thornton,J.M. (2003) An algorithm for constraint-based structural template matching: Application to 3D templates with statistical analysis. Bioinformatics, 19, 1644-1649.
-
(2003)
Bioinformatics
, vol.19
, pp. 1644-1649
-
-
Barker, J.A.1
Thornton, J.M.2
-
22
-
-
0030724039
-
TESS: A geometric hashing algorithm for deriving 3D coordinate templates for searching structural databases. Application to enzyme active sites
-
Wallace,A.C., Borkakoti,N. and Thornton,J.M. (1997) TESS: A geometric hashing algorithm for deriving 3D coordinate templates for searching structural databases. Application to enzyme active sites. Protein Sci., 6, 2308-2323.
-
(1997)
Protein Sci.
, vol.6
, pp. 2308-2323
-
-
Wallace, A.C.1
Borkakoti, N.2
Thornton, J.M.3
-
23
-
-
0345864027
-
The Catalytic Site Atlas: A resource of catalytic sites and residues identified in enzymes using structural data
-
Porter,C.T., Bartlett,G.J. and Thornton,J.M. (2004) The Catalytic Site Atlas: A resource of catalytic sites and residues identified in enzymes using structural data. Nucleic Acids Res., 32, D129-D133.
-
(2004)
Nucleic Acids Res.
, vol.32
-
-
Porter, C.T.1
Bartlett, G.J.2
Thornton, J.M.3
-
24
-
-
0043180474
-
PISCES: A protein sequence culling server
-
Wang,G. and Dunbrack,R.L.Jr (2003) PISCES: A protein sequence culling server. Bioinformatics, 19, 1589-1591.
-
(2003)
Bioinformatics
, vol.19
, pp. 1589-1591
-
-
Wang, G.1
Dunbrack Jr., R.L.2
-
25
-
-
20444465355
-
Soaplab - A unified Sesame door to analysis tools
-
Cox,S.J. (ed.), 2-4 September. Nottingham, UK
-
Senger,M., Rice,P. and Oinn,T. (2003) Soaplab - a unified Sesame door to analysis tools. In Cox,S.J. (ed.), Proceedings, UK e-Science, All Hands Meeting, 2-4 September. Nottingham, UK, pp. 509-513.
-
(2003)
Proceedings, UK E-Science, All Hands Meeting
, pp. 509-513
-
-
Senger, M.1
Rice, P.2
Oinn, T.3
-
26
-
-
0034069495
-
Gene Ontology tool for the unification of biology
-
The Gene Ontology Consortium
-
The Gene Ontology Consortium (2000), Gene Ontology tool for the unification of biology. Nature Genet., 25, 25-29.
-
(2000)
Nature Genet.
, vol.25
, pp. 25-29
-
-
-
27
-
-
9144252016
-
The Gene Ontology Annotation (GOA) Database: Sharing knowledge in Uniprot with Gene Ontology
-
Camon,E., Magrane,M., Barrell,D., Lee,V., Dimmer,E., Maslen,J., Binns,D., Harte,N., Lopez,R. and Apweiler,R. (2004) The Gene Ontology Annotation (GOA) Database: Sharing knowledge in Uniprot with Gene Ontology. Nucleic Acids Res., 32, D262-D266.
-
(2004)
Nucleic Acids Res.
, vol.32
-
-
Camon, E.1
Magrane, M.2
Barrell, D.3
Lee, V.4
Dimmer, E.5
Maslen, J.6
Binns, D.7
Harte, N.8
Lopez, R.9
Apweiler, R.10
-
28
-
-
13444254300
-
PDBsum more: New summaries and analyses of the known 3D structures of proteins and nucleic acids
-
Laskowski,R.A., Chistyakov,V.V. and Thornton,J.M. (2005) PDBsum more: new summaries and analyses of the known 3D structures of proteins and nucleic acids. Nucleic Acids Res., 33, D266-D268.
-
(2005)
Nucleic Acids Res.
, vol.33
-
-
Laskowski, R.A.1
Chistyakov, V.V.2
Thornton, J.M.3
|