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Volumn 20, Issue SUPPL. 1, 2004, Pages

Striped sheets and protein contact prediction

Author keywords

[No Author keywords available]

Indexed keywords

AMINO ACID;

EID: 24744453057     PISSN: 13674803     EISSN: 13674811     Source Type: Journal    
DOI: 10.1093/bioinformatics/bth913     Document Type: Conference Paper
Times cited : (76)

References (31)
  • 2
    • 0025830469 scopus 로고
    • A method to identify protein sequences that fold into a known 3-dimensional structure
    • Bowie, J.U., Luthy, R. and Lisenberg, D. (1991) A method to identify protein sequences that fold into a known 3-dimensional structure. Science 253, 164-170.
    • (1991) Science , vol.253 , pp. 164-170
    • Bowie, J.U.1    Luthy, R.2    Lisenberg, D.3
  • 3
    • 0033977581 scopus 로고    scopus 로고
    • The ASTRAL compendium for protein structure and sequence analysis
    • Brenner, S.E., Koehl, P. and Levitt, M. (2000) The ASTRAL compendium for protein structure and sequence analysis. Nucleic Acids Res., 28, 254-256.
    • (2000) Nucleic Acids Res. , vol.28 , pp. 254-256
    • Brenner, S.E.1    Koehl, P.2    Levitt, M.3
  • 4
    • 0032555696 scopus 로고    scopus 로고
    • Prediction of local structure in proteins using a library of sequence-structure motifs
    • Bystroff, C. and Baker, D. (1998) Prediction of local structure in proteins using a library of sequence-structure motifs. J. Mol. Biol., 281, 565-577.
    • (1998) J. Mol. Biol. , vol.281 , pp. 565-577
    • Bystroff, C.1    Baker, D.2
  • 5
    • 0034604368 scopus 로고    scopus 로고
    • HMMSTR: A hidden Markov model for local sequence-structure correlations in proteins
    • Bystroff, C., Thorsson, V. and Baker, D. (2000) HMMSTR: a hidden Markov model for local sequence-structure correlations in proteins. J. Mol. Biol., 301, 173-190.
    • (2000) J. Mol. Biol. , vol.301 , pp. 173-190
    • Bystroff, C.1    Thorsson, V.2    Baker, D.3
  • 6
    • 0033614827 scopus 로고    scopus 로고
    • X-ray structure of Novamyl, the five-domain "maltogenic" alpha-amylase from Bacillus stearothermophilus: Maltose and acarbose complexes at 1.7 Åresolution
    • Dauter, Z., Dauter, M., Brzozowski, A.M., Pedersen, A., Wilson, K.S. and Davies, G.J. (1999) X-ray structure of Novamyl, the five-domain "maltogenic" alpha-amylase from Bacillus stearothermophilus: maltose and acarbose complexes at 1.7 Åresolution. Biochemistry, 38, 8385-8392.
    • (1999) Biochemistry , vol.38 , pp. 8385-8392
    • Dauter, Z.1    Dauter, M.2    Brzozowski, A.M.3    Pedersen, A.4    Wilson, K.S.5    Davies, G.J.6
  • 9
    • 0035663988 scopus 로고    scopus 로고
    • Prediction of contact maps with neural networks and correlated mutations
    • Fariselli, P., Olmea, O., Valencia, A. and Casadio, R. (2001) Prediction of contact maps with neural networks and correlated mutations. Protein Eng., 14, 835-843.
    • (2001) Protein Eng. , vol.14 , pp. 835-843
    • Fariselli, P.1    Olmea, O.2    Valencia, A.3    Casadio, R.4
  • 10
    • 0036301488 scopus 로고    scopus 로고
    • Detecting compensatory covariation signals in protein evolution using reconstructed ancestral sequences
    • Fukami-Kobayashi, K., Schrieber, D.R. and Benner, S.A. (2002) Detecting compensatory covariation signals in protein evolution using reconstructed ancestral sequences. J. Mol. Biol., 319, 729-743.
    • (2002) J. Mol. Biol. , vol.319 , pp. 729-743
    • Fukami-Kobayashi, K.1    Schrieber, D.R.2    Benner, S.A.3
  • 12
    • 0029112501 scopus 로고
    • Recurring local sequence motifs in proteins
    • Han, K.F. and Baker, D. (1995) Recurring local sequence motifs in proteins. J. Mol. Biol., 251, 176-187.
    • (1995) J. Mol. Biol. , vol.251 , pp. 176-187
    • Han, K.F.1    Baker, D.2
  • 13
    • 0029898244 scopus 로고    scopus 로고
    • Global properties of the mapping between local amino-acid sequence and local-structure in proteins
    • Han, K.F. and Baker, D. (1996) Global properties of the mapping between local amino-acid sequence and local-structure in proteins. Proc. Natl Acad. Sci. USA, 93, 5814-5818.
    • (1996) Proc. Natl. Acad. Sci. USA , vol.93 , pp. 5814-5818
    • Han, K.F.1    Baker, D.2
  • 14
    • 0031735020 scopus 로고    scopus 로고
    • Determinants of strand register in antiparallel beta-sheets of proteins
    • Hutchinson, E.G., Sessions, R.B., Thornton, J.M. and Woolfson, D.N. (1998) Determinants of strand register in antiparallel beta-sheets of proteins. Protein Sci., 7, 2287-2300.
    • (1998) Protein Sci. , vol.7 , pp. 2287-2300
    • Hutchinson, E.G.1    Sessions, R.B.2    Thornton, J.M.3    Woolfson, D.N.4
  • 15
    • 0033578684 scopus 로고    scopus 로고
    • Protein secondary structure prediction based on position- Specific scoring matrices
    • Jones, D.T. (1999) Protein secondary structure prediction based on position- specific scoring matrices. J. Mol. Biol., 292, 195-202.
    • (1999) J. Mol. Biol. , vol.292 , pp. 195-202
    • Jones, D.T.1
  • 16
    • 0034599484 scopus 로고    scopus 로고
    • The active site architecture of Pisum sativum beta-carbonic anhydrase is a mirror image of that of alpha-carbonic anhydrases
    • Kimber, M.S. and Pai, E.F. (2000) The active site architecture of Pisum sativum beta-carbonic anhydrase is a mirror image of that of alpha-carbonic anhydrases. EMBO J., 19, 1407-1418.
    • (2000) EMBO J. , vol.19 , pp. 1407-1418
    • Kimber, M.S.1    Pai, E.F.2
  • 17
    • 24744471870 scopus 로고
    • The self-organizing feature maps
    • Kohonen, T. and Makisara, K. (1989) The self-organizing feature maps. Phys. Scripta, 39, 168-172.
    • (1989) Phys. Scripta , vol.39 , pp. 168-172
    • Kohonen, T.1    Makisara, K.2
  • 18
    • 0026244229 scopus 로고
    • Molscript - A program to produce both detailed and schematic plots of protein structures
    • Kraulis, P.J. (1991) Molscript-a program to produce both detailed and schematic plots of protein structures. J. Appl. Cryst., 24, 946-950.
    • (1991) J. Appl. Cryst. , vol.24 , pp. 946-950
    • Kraulis, P.J.1
  • 19
    • 0028785919 scopus 로고
    • Protein-structure prediction - A special issue
    • Lattman, E.E. (1995) Protein-structure prediction-a special issue. Prot. Struct. Funct. Genet., 23, 1.
    • (1995) Prot. Struct. Funct. Genet. , vol.23 , pp. 1
    • Lattman, E.E.1
  • 20
    • 0031406438 scopus 로고    scopus 로고
    • Protein distance constraints predicted by neural networks and probability density functions
    • Lund, O., Zaremba, S.M. and Gregoret, L.M. (1997) Protein distance constraints predicted by neural networks and probability density functions. Protein Eng., 10, 1241-1248.
    • (1997) Protein Eng. , vol.10 , pp. 1241-1248
    • Lund, O.1    Zaremba, S.M.2    Gregoret, L.M.3
  • 21
    • 24744458195 scopus 로고    scopus 로고
    • Introducing a Perl genetic programming system: And can meta-evolution solve the bloat problem?
    • LNCS 2610 Springer-Verlag, Heidelberg
    • MacCallum, R.M. (2003) Introducing a Perl genetic programming system: and can meta-evolution solve the bloat problem?. Genetic Programming, Proceedings of EuroGP'2003, LNCS 2610 Springer-Verlag, Heidelberg, pp. 369-378.
    • (2003) Genetic Programming, Proceedings of EuroGP'2003 , pp. 369-378
    • MacCallum, R.M.1
  • 22
    • 0035793216 scopus 로고    scopus 로고
    • Contributions of residue pairing to beta-sheet formation: Conservation and covariation of amino acid residue pairs on antiparallel beta-strands
    • Mandel-Gutfreund, Y., Rost, B. and Valencia, A. (2001) Contributions of residue pairing to beta-sheet formation: conservation and covariation of amino acid residue pairs on antiparallel beta-strands. J. Mol. Biol., 305, 1145-1159.
    • (2001) J. Mol. Biol. , vol.305 , pp. 1145-1159
    • Mandel-Gutfreund, Y.1    Rost, B.2    Valencia, A.3
  • 23
    • 0033550256 scopus 로고    scopus 로고
    • Effective use of sequence correlation and conservation in fold recognition
    • Olmea, O., Li, H., Zhang, H., Peterson, J.A. and Poulos, T.L. (1999) Effective use of sequence correlation and conservation in fold recognition. J. Mol. Biol., 293, 1221-1239.
    • (1999) J. Mol. Biol. , vol.293 , pp. 1221-1239
    • Olmea, O.1    Li, H.2    Zhang, H.3    Peterson, J.A.4    Poulos, T.L.5
  • 24
    • 0041719954 scopus 로고    scopus 로고
    • Prediction of contact maps by GIOHMMs and recurrent neural networks using lateral propagation from all four cardinal corners
    • Pollastri, G. and Baldi, P. (2002) Prediction of contact maps by GIOHMMs and recurrent neural networks using lateral propagation from all four cardinal corners. Bioinformatics, 18(Suppl. 1), 62-70.
    • (2002) Bioinformatics , vol.18 , Issue.SUPPL. 1 , pp. 62-70
    • Pollastri, G.1    Baldi, P.2
  • 25
    • 0033514990 scopus 로고    scopus 로고
    • Structure of a cytochrome P450-redox partner electron-transfer complex
    • Sevrioukova, I.F. (1999) Structure of a cytochrome P450-redox partner electron-transfer complex. Proc. Natl Acad. Sci. USA, 96, 1863-1868.
    • (1999) Proc. Natl. Acad. Sci. USA , vol.96 , pp. 1863-1868
    • Sevrioukova, I.F.1
  • 26
    • 0042721397 scopus 로고    scopus 로고
    • Predicting interresidue contacts using templates and pathways
    • Shao, Y. and Bystroff, C. (2003) Predicting interresidue contacts using templates and pathways. Prot. Struct. Funct. Genet., 53(Suppl. 6), 497-502.
    • (2003) Prot. Struct. Funct. Genet. , vol.53 , Issue.SUPPL. 6 , pp. 497-502
    • Shao, Y.1    Bystroff, C.2
  • 27
    • 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
  • 28
    • 0036681397 scopus 로고    scopus 로고
    • Prediction of strand pairing in antiparallel and parallel beta-sheets using information theory
    • Steward, R.E. and Thornton, J.M. (2002) Prediction of strand pairing in antiparallel and parallel beta-sheets using information theory. Prot. Struct. Funct. Genet., 48, 178-191.
    • (2002) Prot. Struct. Funct. Genet. , vol.48 , pp. 178-191
    • Steward, R.E.1    Thornton, J.M.2
  • 29
    • 0027952860 scopus 로고
    • Compensating changes in protein multiple sequence alignments
    • Taylor, W.R. and Hatrick, K. (1994) Compensating changes in protein multiple sequence alignments. Protein Eng., 7, 341-348.
    • (1994) Protein Eng. , vol.7 , pp. 341-348
    • Taylor, W.R.1    Hatrick, K.2
  • 31
    • 0033003903 scopus 로고    scopus 로고
    • Sequence specificity, statistical potentials, and three-dimensional structure prediction with self-correcting distance geometry calculations of beta-sheet formation in proteins
    • Zhu, H. and Braun, W. (1999) Sequence specificity, statistical potentials, and three-dimensional structure prediction with self-correcting distance geometry calculations of beta-sheet formation in proteins. Protein Sci., 8, 326-342.
    • (1999) Protein Sci. , vol.8 , pp. 326-342
    • Zhu, H.1    Braun, W.2


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.