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Volumn 25, Issue 15, 2009, Pages 1976-1977

Ulla: A program for calculating environment-specific amino acid substitution tables

Author keywords

[No Author keywords available]

Indexed keywords

AMINO ACID;

EID: 67650727365     PISSN: 13674803     EISSN: 14602059     Source Type: Journal    
DOI: 10.1093/bioinformatics/btp300     Document Type: Article
Times cited : (12)

References (10)
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    • Chelliah, V.1
  • 2
    • 28644449596 scopus 로고    scopus 로고
    • Functional restraints on the patterns of amino acid substitutions: Application to sequence-structure homology recognition
    • Chelliah,V. et al. (2005) Functional restraints on the patterns of amino acid substitutions: Application to sequence-structure homology recognition. Proteins, 61, 722-731.
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    • Chelliah, V.1
  • 3
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    • Gong,S. and Blundell,T.L. (2008) Discarding functional residues from the substitution table improves predictions of active sites within three-dimensional structures. PLoS Comput. Biol., 4, e1000179.
    • Gong,S. and Blundell,T.L. (2008) Discarding functional residues from the substitution table improves predictions of active sites within three-dimensional structures. PLoS Comput. Biol., 4, e1000179.
  • 4
    • 0026458378 scopus 로고
    • Amino acid substitution matrices from protein blocks
    • Henikoff,S. and Henikoff,J.G. (1992) Amino acid substitution matrices from protein blocks. Proc. Natl Acad. Sci. USA, 89, 10915-10919.
    • (1992) Proc. Natl Acad. Sci. USA , vol.89 , pp. 10915-10919
    • Henikoff, S.1    Henikoff, J.G.2
  • 5
    • 0031714858 scopus 로고    scopus 로고
    • a) JOY: Protein sequence-structure representation and analysis
    • Mizuguchi,K. et al. (1998a) JOY: Protein sequence-structure representation and analysis. Bioinformatics, 14, 617-623.
    • (1998) Bioinformatics , vol.14 , pp. 617-623
    • Mizuguchi, K.1
  • 6
    • 0031766401 scopus 로고    scopus 로고
    • HOMSTRAD: A database of protein structure alignments for homologous families
    • Mizuguchi,K. et al. (1998b) HOMSTRAD: A database of protein structure alignments for homologous families. Protein Sci., 7 2469-2471.
    • (1998) Protein Sci , vol.7 , pp. 2469-2471
    • Mizuguchi, K.1
  • 7
    • 0027062943 scopus 로고
    • Environment-specific amino acid substitution tables: Tertiary templates and prediction of protein folds
    • Overington,J. et al. (1992) Environment-specific amino acid substitution tables: Tertiary templates and prediction of protein folds. Protein Sci., 1, 216-226.
    • (1992) Protein Sci , vol.1 , pp. 216-226
    • Overington, J.1
  • 9
    • 0025341310 scopus 로고
    • Calculation of conformational ensembles from potentials of mean force.An approach to the knowledge-based prediction of local structures in globular proteins
    • Sippl,M.J. (1990) Calculation of conformational ensembles from potentials of mean force.An approach to the knowledge-based prediction of local structures in globular proteins. J. Mol. Biol., 213 859-883.
    • (1990) J. Mol. Biol , vol.213 , pp. 859-883
    • Sippl, M.J.1
  • 10
    • 0027439391 scopus 로고
    • Fragment ranking in modelling of protein structure. Conformationally constrained environmental amino acid substitution tables
    • Topham,C.M. et al. (1993) Fragment ranking in modelling of protein structure. Conformationally constrained environmental amino acid substitution tables. J. Mol. Biol., 229, 194-220.
    • (1993) J. Mol. Biol , vol.229 , pp. 194-220
    • Topham, C.M.1


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