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1236 related items for PubMed ID: 12885659

  • 1. TOUCHSTONE II: a new approach to ab initio protein structure prediction.
    Zhang Y, Kolinski A, Skolnick J.
    Biophys J; 2003 Aug; 85(2):1145-64. PubMed ID: 12885659
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  • 2. Tertiary structure predictions on a comprehensive benchmark of medium to large size proteins.
    Zhang Y, Skolnick J.
    Biophys J; 2004 Oct; 87(4):2647-55. PubMed ID: 15454459
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  • 4. Fold assembly of small proteins using monte carlo simulations driven by restraints derived from multiple sequence alignments.
    Ortiz AR, Kolinski A, Skolnick J.
    J Mol Biol; 1998 Mar 27; 277(2):419-48. PubMed ID: 9514747
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  • 6. TOUCHSTONE: an ab initio protein structure prediction method that uses threading-based tertiary restraints.
    Kihara D, Lu H, Kolinski A, Skolnick J.
    Proc Natl Acad Sci U S A; 2001 Aug 28; 98(18):10125-30. PubMed ID: 11504922
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  • 7. Ab initio protein structure prediction using chunk-TASSER.
    Zhou H, Skolnick J.
    Biophys J; 2007 Sep 01; 93(5):1510-8. PubMed ID: 17496016
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  • 8. SPICKER: a clustering approach to identify near-native protein folds.
    Zhang Y, Skolnick J.
    J Comput Chem; 2004 Apr 30; 25(6):865-71. PubMed ID: 15011258
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  • 9. Optimizing physical energy functions for protein folding.
    Fujitsuka Y, Takada S, Luthey-Schulten ZA, Wolynes PG.
    Proteins; 2004 Jan 01; 54(1):88-103. PubMed ID: 14705026
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  • 10. Use of residual dipolar couplings as restraints in ab initio protein structure prediction.
    Haliloglu T, Kolinski A, Skolnick J.
    Biopolymers; 2003 Dec 01; 70(4):548-62. PubMed ID: 14648765
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  • 13. Prediction of protein structure by simulating coarse-grained folding pathways: a preliminary report.
    Colubri A.
    J Biomol Struct Dyn; 2004 Apr 01; 21(5):625-38. PubMed ID: 14769055
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  • 14. How well can we predict native contacts in proteins based on decoy structures and their energies?
    Zhu J, Zhu Q, Shi Y, Liu H.
    Proteins; 2003 Sep 01; 52(4):598-608. PubMed ID: 12910459
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  • 16. Analysis of TASSER-based CASP7 protein structure prediction results.
    Zhou H, Pandit SB, Lee SY, Borreguero J, Chen H, Wroblewska L, Skolnick J.
    Proteins; 2007 Sep 01; 69 Suppl 8():90-7. PubMed ID: 17705276
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  • 17. Scoring predictive models using a reduced representation of proteins: model and energy definition.
    Fogolari F, Pieri L, Dovier A, Bortolussi L, Giugliarelli G, Corazza A, Esposito G, Viglino P.
    BMC Struct Biol; 2007 Mar 23; 7():15. PubMed ID: 17378941
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  • 18. Ab initio protein structure prediction on a genomic scale: application to the Mycoplasma genitalium genome.
    Kihara D, Zhang Y, Lu H, Kolinski A, Skolnick J.
    Proc Natl Acad Sci U S A; 2002 Apr 30; 99(9):5993-8. PubMed ID: 11959918
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  • 19. Analyses of simulations of three-dimensional lattice proteins in comparison with a simplified statistical mechanical model of protein folding.
    Abe H, Wako H.
    Phys Rev E Stat Nonlin Soft Matter Phys; 2006 Jul 30; 74(1 Pt 1):011913. PubMed ID: 16907133
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  • 20. Distinguishing native conformations of proteins from decoys with an effective free energy estimator based on the OPLS all-atom force field and the Surface Generalized Born solvent model.
    Felts AK, Gallicchio E, Wallqvist A, Levy RM.
    Proteins; 2002 Aug 01; 48(2):404-22. PubMed ID: 12112706
    [Abstract] [Full Text] [Related]

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