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Volumn 77, Issue SUPPL. 9, 2009, Pages 133-137

Template-based and free modeling by RAPTOR ++ in CASP8

Author keywords

CASP; Model quality assessment; Protein threading; Template based modeling; Template free modeling

Indexed keywords

PROTEIN;

EID: 74249111445     PISSN: 08873585     EISSN: 10970134     Source Type: Journal    
DOI: 10.1002/prot.22567     Document Type: Article
Times cited : (14)

References (27)
  • 1
    • 0035812694 scopus 로고    scopus 로고
    • Protein structure prediction and structural genomics
    • DOI 10.1126/science.1065659
    • Baker D, Sali A. Protein structure prediction and structural genomics. Science 2001; 294: 93-96. (Pubitemid 32952955)
    • (2001) Science , vol.294 , Issue.5540 , pp. 93-96
    • Baker, D.1    Sali, A.2
  • 3
    • 3242887695 scopus 로고    scopus 로고
    • Protein structure prediction and analysis using the robetta server
    • DOI 10.1093/nar/gkh468
    • Kim DE, Chivian D, Baker D. Protein structure prediction and analysis using the Robetta server. Nucleic Acids Res 2004; 32: W526-W531. (Pubitemid 38997389)
    • (2004) Nucleic Acids Research , vol.32 , Issue.WEB. SERVER. ISS.
    • Kim, D.E.1    Chivian, D.2    Baker, D.3
  • 4
    • 34548608483 scopus 로고    scopus 로고
    • Ab initio protein structure prediction using chunk-TASSER
    • DOI 10.1529/biophysj.107.109959
    • Zhou HY, Skolnick J. Ab initio protein structure prediction using Chunk-TASSER. Biophys J 2007; 93: 1510-1518. (Pubitemid 47403296)
    • (2007) Biophysical Journal , vol.93 , Issue.5 , pp. 1510-1518
    • Zhou, H.1    Skolnick, J.2
  • 5
    • 0242369082 scopus 로고    scopus 로고
    • RAPTOR optimal protein threading by linear programming
    • Xu J, Li M, Kim D, Xu Y. RAPTOR: optimal protein threading by linear programming. J Bioinform Comput Biol 2003; 1: 95-117.
    • (2003) J Bioinform Comput Biol , vol.1 , pp. 95-117
    • Xu, J.1    Li, M.2    Kim, D.3    Xu, Y.4
  • 8
    • 17644392830 scopus 로고    scopus 로고
    • TM-align: A protein structure alignment algorithm based on the TM-score
    • DOI 10.1093/nar/gki524
    • Zhang Y, Skolnick J. TM-align: a protein structure alignment algorithm based on the TM-score. Nucleic Acids Res 2005; 33: 2302-2309. (Pubitemid 41439897)
    • (2005) Nucleic Acids Research , vol.33 , Issue.7 , pp. 2302-2309
    • Zhang, Y.1    Skolnick, J.2
  • 9
    • 0029361476 scopus 로고
    • Comparative protein modeling by satisfaction of spatial restraints
    • Sali A. Comparative protein modeling by satisfaction of spatial restraints. Mol Med Today 1995; 1: 270-277.
    • (1995) Mol Med Today , vol.1 , pp. 270-277
    • Sali, A.1
  • 11
    • 42149153292 scopus 로고    scopus 로고
    • A multi-template combination algorithm for protein comparative modeling
    • DOI 10.1186/1472-6807-8-18
    • Cheng J. A multi-template combination algorithm for protein comparative modeling. BMC Struct Biol 2008; 8: 18, (Pubitemid 351537916)
    • (2008) BMC Structural Biology , vol.8 , pp. 18
    • Cheng, J.1
  • 12
    • 0043123123 scopus 로고    scopus 로고
    • Tcoffee@igs: A web server for computing, evaluating and combining multiple sequence alignments
    • DOI 10.1093/nar/gkg522
    • Poirot O, O'Toole E, Notredame C. Tcoffee@igs: a web server for computing, evaluating and combining multiple sequence alignments. Nucleic Acids Res 2003; 31: 3503-3506. (Pubitemid 37442186)
    • (2003) Nucleic Acids Research , vol.31 , Issue.13 , pp. 3503-3506
    • Poirot, O.1    O'Toole, E.2    Notredame, C.3
  • 13
    • 0037406141 scopus 로고    scopus 로고
    • Can correct protein models be identified?
    • Wallner B, Elofsson A. Can correct protein models be identified? Protein Science 2003; 12: 1073-1086.
    • (2003) Protein Science , vol.12 , pp. 1073-1086
    • Wallner, B.1    Elofsson, A.2
  • 14
    • 0036838311 scopus 로고    scopus 로고
    • Distance-scaled, finite ideal-gas reference state improves structure-derived potentials of mean force for structure selection and stability prediction
    • DOI 10.1110/ps.0217002
    • Zhou H, Zhou Y. Distance-scaled, finite ideal-gas reference state improves structure-derived potentials of mean force for structure selection and stability prediction. Protein Sci 2002; 11: 2714-2716; 2003; 12: 2121. (Pubitemid 35191145)
    • (2002) Protein Science , vol.11 , Issue.11 , pp. 2714-2726
    • Zhou, H.1    Zhou, Y.2
  • 15
    • 50849085804 scopus 로고    scopus 로고
    • Discriminative learning for protein conformation sampling
    • Zhao F, Li SC, Sterner BW, Xu J. Discriminative learning for protein conformation sampling. Proteins 2008; 73: 228-240.
    • (2008) Proteins , vol.73 , pp. 228-240
    • Zhao, F.1    Li, S.C.2    Sterner, B.W.3    Xu, J.4
  • 17
    • 0002745702 scopus 로고
    • The fisher-bingham distribution on the sphere
    • Kent JT. The fisher-bingham distribution on the sphere. J Roy Stat Soc B 1982; 44: 71-80.
    • (1982) J Roy Stat Soc B , vol.44 , pp. 71-80
    • Kent, J.T.1
  • 19
    • 34748842218 scopus 로고    scopus 로고
    • β statistical potentials can outperform all-atom potentials in decoy identification
    • DOI 10.1110/ps.072939707
    • Fitzgerald JE, Jha AK, Colubri A, Sosnick TR, Freed KF. Reduced C-beta statistical potentials can outperform all-atom potentials in decoy identification. Protein Sci 2007; 16: 2123-2139. (Pubitemid 47481648)
    • (2007) Protein Science , vol.16 , Issue.10 , pp. 2123-2139
    • Fitzgerald, J.E.1    Jha, A.K.2    Colubri, A.3    Sosnick, T.R.4    Freed, K.F.5
  • 20
    • 33749578940 scopus 로고    scopus 로고
    • Statistical potential for assessment and prediction of protein structures
    • DOI 10.1110/ps.062416606
    • Shen M, Sali A. Statistical potential for assessment and prediction of protein structures. Protein Sci 2006; 15: 2507-2524. (Pubitemid 44771688)
    • (2006) Protein Science , vol.15 , Issue.11 , pp. 2507-2524
    • Shen, M.1    Sali, A.2
  • 22
    • 0036971123 scopus 로고    scopus 로고
    • Dynamics of hydrogen bond desolvation in protein folding
    • DOI 10.1016/S0022-2836(02)00679-4
    • Fernandez A, Sosnick TR, Colubri A. Dynamics of hydrogen bond desolvation in protein folding. J Mol Biol 2002; 321: 659-675. (Pubitemid 36124804)
    • (2002) Journal of Molecular Biology , vol.321 , Issue.4 , pp. 659-675
    • Fernandez, A.1    Sosnick, T.R.2    Colubri, A.3
  • 24
    • 0031743421 scopus 로고    scopus 로고
    • Profile hidden Markov models
    • Eddy SR. Profile hidden Markov models. Bioinformatics 1998; 14: 755-763.
    • (1998) Bioinformatics , vol.14 , pp. 755-763
    • Eddy, S.R.1
  • 25
    • 0028181441 scopus 로고
    • Hidden markov models in computational biology- Applications to protein modeling
    • DOI 10.1006/jmbi.1994.1104
    • Krogh A, Brown M, Mian IS, Sjolander K, Haussier D. Hidden Markov-models in computational biology-Applications to Protein Modeling. J Mol Biol 1994; 235: 1501-1531. (Pubitemid 2022516)
    • (1994) Journal of Molecular Biology , vol.235 , Issue.5 , pp. 1501-1531
    • Krogh, A.1    Brown, M.2    Mian, I.S.3    Sjolander, K.4    Haussler, D.5
  • 27
    • 62849113729 scopus 로고    scopus 로고
    • SELECTpro: Effective protein model selection using a structure-based energy function resistant to BLUNDERS
    • Randall A, Baldi P. SELECTpro: effective protein model selection using a structure-based energy function resistant to BLUNDERS. BMC Struct Biol 2008; 8: 52.
    • (2008) BMC Struct Biol , vol.8 , pp. 52
    • Randall, A.1    Baldi, P.2


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.