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Volumn 24, Issue 5, 2008, Pages 645-651

Structural search and retrieval using a tableau representation of protein folding patterns

Author keywords

[No Author keywords available]

Indexed keywords

ACCURACY; ARTICLE; COMPUTER PROGRAM; CONTROLLED STUDY; HUMAN; INFORMATION RETRIEVAL; NONHUMAN; PRIORITY JOURNAL; PROTEIN ANALYSIS; PROTEIN DATABASE; PROTEIN FOLDING; PROTEIN SECONDARY STRUCTURE; STRUCTURAL BIOINFORMATICS; STRUCTURE ANALYSIS;

EID: 40049088786     PISSN: 13674803     EISSN: 14602059     Source Type: Journal    
DOI: 10.1093/bioinformatics/btm641     Document Type: Article
Times cited : (28)

References (28)
  • 1
    • 0024020848 scopus 로고
    • A simple qualitative representation of polypeptide chain folds: Comparison of protein tertiary structures
    • Abagyan,R.A. and Maiorov,V.N. (1988) A simple qualitative representation of polypeptide chain folds: Comparison of protein tertiary structures. J. Biomol. Struct. Dyn., 5, 1267-1279.
    • (1988) J. Biomol. Struct. Dyn , vol.5 , pp. 1267-1279
    • Abagyan, R.A.1    Maiorov, V.N.2
  • 2
    • 0026951618 scopus 로고
    • Similarity searching in databases of three-dimensional molecules and macromolecules
    • Artymiuk,P.J. et all (1992) Similarity searching in databases of three-dimensional molecules and macromolecules. J. Chem. Inf. Comput. Sci., 32, 617-630.
    • (1992) J. Chem. Inf. Comput. Sci , vol.32 , pp. 617-630
    • Artymiuk, P.J.1    et all2
  • 3
    • 0026553106 scopus 로고
    • Three-dimensional structural resemblance between leucine aminopeptidase and carboxypeptidase A revealed by graph-theoretical techniques
    • Artymiuk,P.J. et al. (1992) Three-dimensional structural resemblance between leucine aminopeptidase and carboxypeptidase A revealed by graph-theoretical techniques. FEBS Lett., 303, 48-52.
    • (1992) FEBS Lett , vol.303 , pp. 48-52
    • Artymiuk, P.J.1
  • 4
    • 0003787146 scopus 로고
    • Princeton University Press, Princeton, NJ
    • Bellman,R. (1957) Dynamic Programming. Princeton University Press, Princeton, NJ.
    • (1957) Dynamic Programming
    • Bellman, R.1
  • 6
    • 0348129526 scopus 로고    scopus 로고
    • The ASTRAL compendium in 2004
    • Database issue
    • Chandonia,J.M. et al. (2004) The ASTRAL compendium in 2004. Nucleic Acids Res., 32 (Database issue).
    • (2004) Nucleic Acids Res , vol.32
    • Chandonia, J.M.1
  • 7
    • 0027511808 scopus 로고
    • Identification of tertiary structure resemblance in proteins using a maximal common subgraph isomorphism algorithm
    • Grindley,H.M. et al. (1993) Identification of tertiary structure resemblance in proteins using a maximal common subgraph isomorphism algorithm. J. Mol. Biol., 229, 707-721.
    • (1993) J. Mol. Biol , vol.229 , pp. 707-721
    • Grindley, H.M.1
  • 8
    • 0141840833 scopus 로고    scopus 로고
    • Recognizing the fold of a protein structure
    • Harrison,A. et al. (2003) Recognizing the fold of a protein structure. Bioinformatics, 19, 1748-59.
    • (2003) Bioinformatics , vol.19 , pp. 1748-1759
    • Harrison, A.1
  • 9
    • 0027440362 scopus 로고
    • Protein structure comparison by alignment of distance matrices
    • Holm,L. and Sander,C. (1993) Protein structure comparison by alignment of distance matrices. J. Mol. Biol., 233, 123-138.
    • (1993) J. Mol. Biol , vol.233 , pp. 123-138
    • Holm, L.1    Sander, C.2
  • 10
    • 0020997912 scopus 로고
    • Dictionary of protein secondary structure: Pattern recognition of hydrogen-bonded and geometrical features
    • Kabsch,W. and Sander,C. (1983) Dictionary of protein secondary structure: Pattern recognition of hydrogen-bonded and geometrical features. Biopolymers, 22, 2577-2637.
    • (1983) Biopolymers , vol.22 , pp. 2577-2637
    • Kabsch, W.1    Sander, C.2
  • 11
    • 33847076452 scopus 로고    scopus 로고
    • Contact patterns between helices and strands of sheet define protein folding patterns
    • Kamat,A.P. and Lesk,A.M. (2007) Contact patterns between helices and strands of sheet define protein folding patterns. Proteins: Struct. Funct. Bioinform., 66, 869-876.
    • (2007) Proteins: Struct. Funct. Bioinform , vol.66 , pp. 869-876
    • Kamat, A.P.1    Lesk, A.M.2
  • 12
    • 0030016158 scopus 로고    scopus 로고
    • An algorithm for finding maximal common subtopologies in a set of protein structures
    • Koch,I. et al. (1996) An algorithm for finding maximal common subtopologies in a set of protein structures. J. Comput. Biol., 3, 289-306.
    • (1996) J. Comput. Biol , vol.3 , pp. 289-306
    • Koch, I.1
  • 13
    • 33746218852 scopus 로고    scopus 로고
    • MUSTANG: A multiple structural alignment algorithm
    • Konagurthu,A.S. et al. (2006) MUSTANG: A multiple structural alignment algorithm. Proteins. Struct. Funct. Bioinform., 64 559-574.
    • (2006) Proteins. Struct. Funct. Bioinform , vol.64 , pp. 559-574
    • Konagurthu, A.S.1
  • 14
    • 0019332167 scopus 로고
    • How different amino acid sequences determine similar protein structures: The structure and evolutionary dynamics of the globins
    • Lesk,A.M. and Chothia,C. (1980) How different amino acid sequences determine similar protein structures: The structure and evolutionary dynamics of the globins. J. Mol. Biol., 136, 225-270.
    • (1980) J. Mol. Biol , vol.136 , pp. 225-270
    • Lesk, A.M.1    Chothia, C.2
  • 15
    • 0029123542 scopus 로고
    • Systematic representation of protein folding patterns
    • Lesk,A.M. (1995) Systematic representation of protein folding patterns. J. Mol. Graphics, 13, 159-164.
    • (1995) J. Mol. Graphics , vol.13 , pp. 159-164
    • Lesk, A.M.1
  • 16
    • 0033977962 scopus 로고    scopus 로고
    • SCOP: A structural classification of proteins database
    • Lo Conte,L. et al. (2000) SCOP: A structural classification of proteins database. Nucleic Acids Res., 28, 257-259.
    • (2000) Nucleic Acids Res , vol.28 , pp. 257-259
    • Lo Conte, L.1
  • 17
    • 0028838717 scopus 로고
    • Threading a database of protein cores
    • Madej,T. et al. (1995) Threading a database of protein cores. Proteins, 23, 356-369.
    • (1995) Proteins , vol.23 , pp. 356-369
    • Madej, T.1
  • 18
    • 0346494932 scopus 로고    scopus 로고
    • TOPS: An enhanced database of protein structural topology
    • Michalopoulos,I. et al. (2004) TOPS: An enhanced database of protein structural topology. Nucleic Acid Res., 32, D251-D254.
    • (2004) Nucleic Acid Res , vol.32
    • Michalopoulos, I.1
  • 19
    • 0029061843 scopus 로고
    • Comparison of spatial arrangements of secondary structural elements in proteins
    • Mizuguchi,K. and Go,N. (1995) Comparison of spatial arrangements of secondary structural elements in proteins. Protein Eng., 8, 353-362.
    • (1995) Protein Eng , vol.8 , pp. 353-362
    • Mizuguchi, K.1    Go, N.2
  • 20
    • 0014757386 scopus 로고
    • A general method applicable to the search for similarities in the amino acid sequence of two proteins
    • Needleman,S.B. and Wunsch,C.D. (1970) A general method applicable to the search for similarities in the amino acid sequence of two proteins. J. Mol. Biol., 48, 443-453.
    • (1970) J. Mol. Biol , vol.48 , pp. 443-453
    • Needleman, S.B.1    Wunsch, C.D.2
  • 21
    • 0030777303 scopus 로고    scopus 로고
    • CATH a hierarchic classification of protein domain structures
    • Orengo,C.A. (1997) CATH a hierarchic classification of protein domain structures. Structure, 5, 1093-1108.
    • (1997) Structure , vol.5 , pp. 1093-1108
    • Orengo, C.A.1
  • 22
    • 0025649353 scopus 로고
    • A rapid method for protein structure alignment
    • Orengo,C.A. and Taylor,W.R. (1990) A rapid method for protein structure alignment. J. Theor. Biol., 147, 517-551.
    • (1990) J. Theor. Biol , vol.147 , pp. 517-551
    • Orengo, C.A.1    Taylor, W.R.2
  • 24
    • 40049097515 scopus 로고    scopus 로고
    • Rivest,R. (1992) The MD5 message digest algorithm, RFC 1321. MIT and RSA Data Security, Inc.
    • Rivest,R. (1992) The MD5 message digest algorithm, RFC 1321. MIT and RSA Data Security, Inc.
  • 25
    • 34548666167 scopus 로고    scopus 로고
    • A common fold mediates vertebrate defense and bacterial attack
    • Rosado,C.J. et al. (2007) A common fold mediates vertebrate defense and bacterial attack. Science, 317, 1548-1551.
    • (2007) Science , vol.317 , pp. 1548-1551
    • Rosado, C.J.1
  • 26
    • 0028373667 scopus 로고
    • Structure-based identification and clustering of protein families and super-families
    • Rufino,S. and Blundell,T. (1994) Structure-based identification and clustering of protein families and super-families. J. Computer Aided Mol. Design, 8.
    • (1994) J. Computer Aided Mol. Design , vol.8
    • Rufino, S.1    Blundell, T.2
  • 27
    • 0031715982 scopus 로고    scopus 로고
    • Protein structure alignment by incremental combinatorial extension (CE) of the optimal path
    • Shindyalov,I.N. and Bourne,P.E. (1998) Protein structure alignment by incremental combinatorial extension (CE) of the optimal path. Protein Eng., 11, 739-747.
    • (1998) Protein Eng , vol.11 , pp. 739-747
    • Shindyalov, I.N.1    Bourne, P.E.2
  • 28
    • 34447332520 scopus 로고    scopus 로고
    • Searching for three-dimensional secondary structural patterns in proteins with ProSMoS
    • Shi,S. et al. (2007) Searching for three-dimensional secondary structural patterns in proteins with ProSMoS. Bioinformatics, 23, 1331-1338.
    • (2007) Bioinformatics , vol.23 , pp. 1331-1338
    • Shi, S.1


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.