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PUBMED FOR HANDHELDS

Journal Abstract Search


497 related items for PubMed ID: 11913380

  • 1. Identifying native-like protein structures using physics-based potentials.
    Dominy BN, Brooks CL.
    J Comput Chem; 2002 Jan 15; 23(1):147-60. PubMed ID: 11913380
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  • 2. 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]

  • 3. Discrimination of the native from misfolded protein models with an energy function including implicit solvation.
    Lazaridis T, Karplus M.
    J Mol Biol; 1999 May 07; 288(3):477-87. PubMed ID: 10329155
    [Abstract] [Full Text] [Related]

  • 4. 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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  • 5. Distinguish protein decoys by using a scoring function based on a new AMBER force field, short molecular dynamics simulations, and the generalized born solvent model.
    Lee MC, Duan Y.
    Proteins; 2004 May 15; 55(3):620-34. PubMed ID: 15103626
    [Abstract] [Full Text] [Related]

  • 6. Discrimination of near-native protein structures from misfolded models by empirical free energy functions.
    Gatchell DW, Dennis S, Vajda S.
    Proteins; 2000 Dec 01; 41(4):518-34. PubMed ID: 11056039
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  • 11. Discrimination between native and intentionally misfolded conformations of proteins: ES/IS, a new method for calculating conformational free energy that uses both dynamics simulations with an explicit solvent and an implicit solvent continuum model.
    Vorobjev YN, Almagro JC, Hermans J.
    Proteins; 1998 Sep 01; 32(4):399-413. PubMed ID: 9726412
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  • 13. Physical scoring function based on AMBER force field and Poisson-Boltzmann implicit solvent for protein structure prediction.
    Hsieh MJ, Luo R.
    Proteins; 2004 Aug 15; 56(3):475-86. PubMed ID: 15229881
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  • 14. Performance comparison of generalized born and Poisson methods in the calculation of electrostatic solvation energies for protein structures.
    Feig M, Onufriev A, Lee MS, Im W, Case DA, Brooks CL.
    J Comput Chem; 2004 Jan 30; 25(2):265-84. PubMed ID: 14648625
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  • 15. MOPED: method for optimizing physical energy parameters using decoys.
    Seok C, Rosen JB, Chodera JD, Dill KA.
    J Comput Chem; 2003 Jan 15; 24(1):89-97. PubMed ID: 12483678
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  • 17. A reduced protein model with accurate native-structure identification ability.
    Betancourt MR.
    Proteins; 2003 Dec 01; 53(4):889-907. PubMed ID: 14635131
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