메뉴 건너뛰기




Volumn 84, Issue , 2016, Pages 51-66

Evaluation of free modeling targets in CASP11 and ROLL

Author keywords

Ab initio; Alignment quality; CASP ROLL; CASP11; Domain structure; Free modeling; Protein fold prediction; Protein structure; Structure comparison

Indexed keywords

PROTEIN;

EID: 84955311378     PISSN: 08873585     EISSN: 10970134     Source Type: Journal    
DOI: 10.1002/prot.24973     Document Type: Article
Times cited : (63)

References (24)
  • 2
    • 79960101915 scopus 로고    scopus 로고
    • De novo protein structure prediction by dynamic fragment assembly and conformational space annealing
    • Lee J, Lee J, Sasaki TN, Sasai M, Seok C, Lee J. De novo protein structure prediction by dynamic fragment assembly and conformational space annealing. Proteins 2011;79:2403–2417.
    • (2011) Proteins , vol.79 , pp. 2403-2417
    • Lee, J.1    Lee, J.2    Sasaki, T.N.3    Sasai, M.4    Seok, C.5    Lee, J.6
  • 4
    • 0031585984 scopus 로고    scopus 로고
    • Assembly of protein tertiary structures from fragments with similar local sequences using simulated annealing and Bayesian scoring functions
    • Simons KT, Kooperberg C, Huang E, Baker D. Assembly of protein tertiary structures from fragments with similar local sequences using simulated annealing and Bayesian scoring functions. J Mol Biol 1997;268:209–225.
    • (1997) J Mol Biol , vol.268 , pp. 209-225
    • Simons, K.T.1    Kooperberg, C.2    Huang, E.3    Baker, D.4
  • 5
    • 84862225232 scopus 로고    scopus 로고
    • Ab initio protein structure assembly using continuous structure fragments and optimized knowledge-based force field
    • Xu D, Zhang Y. Ab initio protein structure assembly using continuous structure fragments and optimized knowledge-based force field. Proteins 2012;80:1715–1735.
    • (2012) Proteins , vol.80 , pp. 1715-1735
    • Xu, D.1    Zhang, Y.2
  • 8
    • 84892959104 scopus 로고    scopus 로고
    • Assessment of template-free modeling in CASP10 and ROLL
    • Tai CH, Bai H, Taylor TJ, Lee B. Assessment of template-free modeling in CASP10 and ROLL. Proteins 2014;82(Suppl 2):57–83.
    • (2014) Proteins , vol.82 , pp. 57-83
    • Tai, C.H.1    Bai, H.2    Taylor, T.J.3    Lee, B.4
  • 11
    • 84893010856 scopus 로고    scopus 로고
    • CASP prediction center infrastructure and evaluation measures in CASP10 and CASP ROLL
    • Kryshtafovych A, Monastyrskyy B, Fidelis K. CASP prediction center infrastructure and evaluation measures in CASP10 and CASP ROLL. Proteins 2014;82(Suppl 2):7–13.
    • (2014) Proteins , vol.82 , pp. 7-13
    • Kryshtafovych, A.1    Monastyrskyy, B.2    Fidelis, K.3
  • 13
    • 0042622381 scopus 로고    scopus 로고
    • LGA: A method for finding 3D similarities in protein structures
    • Zemla A. LGA: a method for finding 3D similarities in protein structures. Nucleic Acids Res 2003;31:3370–3374.
    • (2003) Nucleic Acids Res , vol.31 , pp. 3370-3374
    • Zemla, A.1
  • 16
    • 84885990516 scopus 로고    scopus 로고
    • LDDT: A local superposition-free score for comparing protein structures and models using distance difference tests
    • Mariani V, Biasini M, Barbato A, Schwede T. lDDT: a local superposition-free score for comparing protein structures and models using distance difference tests. Bioinformatics 2013;29:2722–2728.
    • (2013) Bioinformatics , vol.29 , pp. 2722-2728
    • Mariani, V.1    Biasini, M.2    Barbato, A.3    Schwede, T.4
  • 19
    • 0242330730 scopus 로고    scopus 로고
    • Assessment of homology-based predictions in CASP5
    • Tramontano A, Morea V. Assessment of homology-based predictions in CASP5. Proteins 2003;53(Suppl 6):352–368.
    • (2003) Proteins , vol.53 , pp. 352-368
    • Tramontano, A.1    Morea, V.2
  • 20
    • 84893024755 scopus 로고    scopus 로고
    • Assessment of CASP10 contact-assisted predictions
    • Taylor TJ, Bai H, Tai CH, Lee B. Assessment of CASP10 contact-assisted predictions. Proteins 2014;82(Suppl 2):84–97.
    • (2014) Proteins , vol.82 , pp. 84-97
    • Taylor, T.J.1    Bai, H.2    Tai, C.H.3    Lee, B.4
  • 21
    • 0034843597 scopus 로고    scopus 로고
    • AL2CO: Calculation of positional conservation in a protein sequence alignment
    • Pei J, Grishin NV. AL2CO: calculation of positional conservation in a protein sequence alignment. Bioinformatics 2001;17:700–712.
    • (2001) Bioinformatics , vol.17 , pp. 700-712
    • Pei, J.1    Grishin, N.V.2
  • 22
    • 67849103757 scopus 로고    scopus 로고
    • SAM-T08, HMM-based protein structure prediction
    • Karplus K. SAM-T08, HMM-based protein structure prediction. Nucleic Acids Res 2009;37(Web Server issue):W492–W497.
    • (2009) Nucleic Acids Res , vol.37 , Issue.Web Server , pp. W492-W497
    • Karplus, K.1
  • 23
    • 80855132939 scopus 로고    scopus 로고
    • Assessment of template based protein structure predictions in CASP9
    • Mariani V, Kiefer F, Schmidt T, Haas J, Schwede T. Assessment of template based protein structure predictions in CASP9. Proteins 2011;79(Suppl 10):37–58.
    • (2011) Proteins , vol.79 , pp. 37-58
    • Mariani, V.1    Kiefer, F.2    Schmidt, T.3    Haas, J.4    Schwede, T.5


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.