메뉴 건너뛰기




Volumn 22, Issue 5, 2006, Pages 550-555

Equivalent binding sites reveal convergently evolved interaction motifs

Author keywords

[No Author keywords available]

Indexed keywords

CAPSID PROTEIN; CHEMOKINE; CHYMOTRYPSIN; NEF PROTEIN; PROTEIN P35; SUBTILISIN; VIRUS PROTEIN;

EID: 33644852029     PISSN: 13674803     EISSN: 13674811     Source Type: Journal    
DOI: 10.1093/bioinformatics/bti782     Document Type: Article
Times cited : (26)

References (29)
  • 1
    • 18744401050 scopus 로고    scopus 로고
    • Structural basis of chemokine sequestration by a herpesvirus decoy receptor
    • Alexander,J. et al. (2002) Structural basis of chemokine sequestration by a herpesvirus decoy receptor. Cell, 111 (3), 343-356.
    • (2002) Cell , vol.111 , Issue.3 , pp. 343-356
    • Alexander, J.1
  • 2
    • 0042386609 scopus 로고    scopus 로고
    • The relationship between sequence and interaction divergence in proteins
    • Aloy,P. et al. (2003) The relationship between sequence and interaction divergence in proteins. J. Mol. Biol., 332 (5), 989-998.
    • (2003) J. Mol. Biol. , vol.332 , Issue.5 , pp. 989-998
    • Aloy, P.1
  • 3
    • 0035816218 scopus 로고    scopus 로고
    • Domain combinations in archaeal, eubacterial and eukaryotic proteomes
    • Apic,G. et al. (2001) Domain combinations in archaeal, eubacterial and eukaryotic proteomes. J. Mol. Biol., 310, 311-325.
    • (2001) J. Mol. Biol. , vol.310 , pp. 311-325
    • Apic, G.1
  • 4
    • 0036307754 scopus 로고    scopus 로고
    • The geometry of domain combination in proteins
    • Bashton,M. and Chothia,C. (2002) The geometry of domain combination in proteins. J. Mol. Biol., 315, 927-939.
    • (2002) J. Mol. Biol. , vol.315 , pp. 927-939
    • Bashton, M.1    Chothia, C.2
  • 5
    • 0033954256 scopus 로고    scopus 로고
    • The protein data bank
    • Berman,H. et al. (2000) The protein data bank. Nucleic Acids Res., 28, 235-242.
    • (2000) Nucleic Acids Res. , vol.28 , pp. 235-242
    • Berman, H.1
  • 6
    • 2942610863 scopus 로고    scopus 로고
    • Visualisation and graph-theoretic analysis of a large-scale protein structural interactome
    • Bolser,D. et al. (2003) Visualisation and graph-theoretic analysis of a large-scale protein structural interactome. BMC Bioinformatics, 4, 45.
    • (2003) BMC Bioinformatics , vol.4 , pp. 45
    • Bolser, D.1
  • 7
    • 0024280501 scopus 로고
    • Dissecting the catalytic triad of a serine protease
    • Carter,P. and Wells,J. (1988) Dissecting the catalytic triad of a serine protease. Nature, 332, 564-568.
    • (1988) Nature , vol.332 , pp. 564-568
    • Carter, P.1    Wells, J.2
  • 8
    • 0037093645 scopus 로고    scopus 로고
    • Dissecting protein-protein recognition sites
    • Chakrabarti,P. and Janin,J. (2002) Dissecting protein-protein recognition sites. Proteins, 47, 334-343.
    • (2002) Proteins , vol.47 , pp. 334-343
    • Chakrabarti, P.1    Janin, J.2
  • 9
    • 0003187567 scopus 로고    scopus 로고
    • The atomic structure of protein-protein recognition sites
    • Conte,L.L. et al. (1999) The atomic structure of protein-protein recognition sites. J. Mol. Biol., 285, 2177-2198.
    • (1999) J. Mol. Biol. , vol.285 , pp. 2177-2198
    • Conte, L.L.1
  • 10
    • 3543090867 scopus 로고    scopus 로고
    • Using convex hulls to extract interaction interfaces from known structures
    • Dafas,P. et al. (2004) Using convex hulls to extract interaction interfaces from known structures. Bioinformatics, 20, 1486-1490.
    • (2004) Bioinformatics , vol.20 , pp. 1486-1490
    • Dafas, P.1
  • 11
    • 18744382508 scopus 로고    scopus 로고
    • Pibase: A comprehensive database of structurally defined protein interfaces
    • Davis,F. and Sali,A. (2005) Pibase: A comprehensive database of structurally defined protein interfaces. Bioinformatics, 21, 1901-1907.
    • (2005) Bioinformatics , vol.21 , pp. 1901-1907
    • Davis, F.1    Sali, A.2
  • 12
    • 0003845223 scopus 로고    scopus 로고
    • The PyMOL molecular graphics system
    • www.pymol.org
    • Delano,W. (2002) The PyMOL molecular graphics system. www.pymol.org.
    • (2002)
    • Delano, W.1
  • 13
    • 13844264506 scopus 로고    scopus 로고
    • ipfam: Visualization of protein-protein interactions in pdb at domain and amino acid resolutions
    • Finn,R. et al. (2005) ipfam: Visualization of protein-protein interactions in pdb at domain and amino acid resolutions. Bioinformatics, 21, 410-412.
    • (2005) Bioinformatics , vol.21 , pp. 410-412
    • Finn, R.1
  • 14
    • 0030028728 scopus 로고    scopus 로고
    • Principles of protein-protein interactions
    • Jones,S. and Thornton,J. (1996) Principles of protein-protein interactions. Proc. Natl Acad. Sci. USA, 93, 13-20.
    • (1996) Proc. Natl Acad. Sci. USA , vol.93 , pp. 13-20
    • Jones, S.1    Thornton, J.2
  • 15
    • 2442646432 scopus 로고    scopus 로고
    • Large-scale co-evolution analysis of protein structural interlogues using the global protein structural interactome map (PSIMAP)
    • Kim,W. et al. (2004) Large-scale co-evolution analysis of protein structural interlogues using the global protein structural interactome map (PSIMAP). Bioinformatics, 20, 1138-1150.
    • (2004) Bioinformatics , vol.20 , pp. 1138-1150
    • Kim, W.1
  • 16
    • 0028961335 scopus 로고
    • SCOP: A structural classification of proteins database for the investigation of sequences and structures
    • Murzin,A. et al. (1995) SCOP: A structural classification of proteins database for the investigation of sequences and structures. J. Mol. Biol., 247, 536.
    • (1995) J. Mol. Biol. , vol.247 , pp. 536
    • Murzin, A.1
  • 17
    • 0034623005 scopus 로고    scopus 로고
    • T-coffee: A novel method for fast and accurate multiple sequence alignment
    • Notredame,C. et al. (2000) T-coffee: A novel method for fast and accurate multiple sequence alignment. J. Mol. Biol., 302, 205-217.
    • (2000) J. Mol. Biol. , vol.302 , pp. 205-217
    • Notredame, C.1
  • 18
    • 0031450506 scopus 로고    scopus 로고
    • Hydrogen bonds and salt bridges across protein-protein interfaces
    • Nussinov,R. et al. (1997) Hydrogen bonds and salt bridges across protein-protein interfaces. Protein Eng., 10, 999-1012.
    • (1997) Protein Eng. , vol.10 , pp. 999-1012
    • Nussinov, R.1
  • 19
    • 0037229456 scopus 로고    scopus 로고
    • Analyzing six types of protein-protein interfaces
    • Ofran,Y. and Rost,B. (2003) Analyzing six types of protein-protein interfaces. J. Mol. Biol., 325, 377-387.
    • (2003) J. Mol. Biol. , vol.325 , pp. 377-387
    • Ofran, Y.1    Rost, B.2
  • 20
    • 0035970298 scopus 로고    scopus 로고
    • Mapping protein family interactions: Intramolecular and intermolecular protein family interaction repertoires in the pdb and yeast
    • Park,J. et al. (2001) Mapping protein family interactions: intramolecular and intermolecular protein family interaction repertoires in the pdb and yeast. J. Mol. Biol., 307, 929-938.
    • (2001) J. Mol. Biol. , vol.307 , pp. 929-938
    • Park, J.1
  • 21
    • 0035177259 scopus 로고    scopus 로고
    • Similarity of phylogenetic trees as indicator of protein-protein interaction
    • Pazos,F. and Valencia,A. (2001) Similarity of phylogenetic trees as indicator of protein-protein interaction. Protein Eng., 14, 609-614.
    • (2001) Protein Eng. , vol.14 , pp. 609-614
    • Pazos, F.1    Valencia, A.2
  • 22
    • 0345864027 scopus 로고    scopus 로고
    • The catalytic site atlas: A resource of catalytic sites and residues identified in enzymes using structural data
    • Porter,C. et al. (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.1
  • 23
    • 11344269401 scopus 로고    scopus 로고
    • Interaction interfaces of protein domains are not topologically equivalent across families within superfamilies: Implications for metabolic and signaling pathways
    • Rekha,N. et al. (2005) Interaction interfaces of protein domains are not topologically equivalent across families within superfamilies: implications for metabolic and signaling pathways. Proteins, 58, 339-353.
    • (2005) Proteins , vol.58 , pp. 339-353
    • Rekha, N.1
  • 24
    • 2442456104 scopus 로고    scopus 로고
    • A method for simultaneous alignment of multiple protein structures
    • Shatsky,M. et al. (2004) A method for simultaneous alignment of multiple protein structures. Proteins, 56, 143-156.
    • (2004) Proteins , vol.56 , pp. 143-156
    • Shatsky, M.1
  • 25
    • 13444257903 scopus 로고    scopus 로고
    • 3did: Interacting protein domains of known three-dimensional structure
    • Stein,A. et al. (2005) 3did: Interacting protein domains of known three-dimensional structure. Nucleic Acids Res., 33, D413-D417.
    • (2005) Nucleic Acids Res. , vol.33
    • Stein, A.1
  • 26
    • 14744305761 scopus 로고    scopus 로고
    • Using a library of structural templates to recognise catalytic sites and explore their evolution in homologous families
    • Torrance,J. et al. (2005) Using a library of structural templates to recognise catalytic sites and explore their evolution in homologous families. J. Mol. Biol., 347, 565-581.
    • (2005) J. Mol. Biol. , vol.347 , pp. 565-581
    • Torrance, J.1
  • 27
    • 0030602896 scopus 로고    scopus 로고
    • A dataset of protein-protein interfaces generated with a sequence-order-independent comparison technique
    • Tsai,C. et al. (1996) A dataset of protein-protein interfaces generated with a sequence-order-independent comparison technique. J. Mol. Biol., 260, 604-620.
    • (1996) J. Mol. Biol. , vol.260 , pp. 604-620
    • Tsai, C.1
  • 28
    • 0035178383 scopus 로고    scopus 로고
    • Protein-protein interfaces: Analysis of amino acid conservation in homodimers
    • Valdar,W. and Thornton,J. (2001) Protein-protein interfaces: Analysis of amino acid conservation in homodimers. Proteins, 42, 108-124.
    • (2001) Proteins , vol.42 , pp. 108-124
    • Valdar, W.1    Thornton, J.2
  • 29
    • 0038475942 scopus 로고    scopus 로고
    • Mutational analyses of the p35-caspase interaction. A bowstring kinetic model of caspase inhibition by p35
    • Xu,G. et al. (2003) Mutational analyses of the p35-caspase interaction. A bowstring kinetic model of caspase inhibition by p35. J. Biol. Chem., 278, 5455-5461.
    • (2003) J. Biol. Chem. , vol.278 , pp. 5455-5461
    • Xu, G.1


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.