These tools will no longer be maintained as of December 31, 2024. Archived website can be found here. PubMed4Hh GitHub repository can be found here. Contact NLM Customer Service if you have questions.


BIOMARKERS

Molecular Biopsy of Human Tumors

- a resource for Precision Medicine *

165 related articles for article (PubMed ID: 22545992)

  • 1. Network properties of protein-decoy structures.
    Chatterjee S; Bhattacharyya M; Vishveshwara S
    J Biomol Struct Dyn; 2012; 29(6):606-22. PubMed ID: 22545992
    [TBL] [Abstract][Full Text] [Related]  

  • 2. 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; 52(4):598-608. PubMed ID: 12910459
    [TBL] [Abstract][Full Text] [Related]  

  • 3. An improved protein decoy set for testing energy functions for protein structure prediction.
    Tsai J; Bonneau R; Morozov AV; Kuhlman B; Rohl CA; Baker D
    Proteins; 2003 Oct; 53(1):76-87. PubMed ID: 12945051
    [TBL] [Abstract][Full Text] [Related]  

  • 4. Network properties of decoys and CASP predicted models: a comparison with native protein structures.
    Chatterjee S; Ghosh S; Vishveshwara S
    Mol Biosyst; 2013 Jul; 9(7):1774-88. PubMed ID: 23694935
    [TBL] [Abstract][Full Text] [Related]  

  • 5. A simple approach for protein structure discrimination based on the network pattern of conserved hydrophobic residues.
    Muppirala UK; Li Z
    Protein Eng Des Sel; 2006 Jun; 19(6):265-75. PubMed ID: 16565147
    [TBL] [Abstract][Full Text] [Related]  

  • 6. Protein refolding in silico with atom-based statistical potentials and conformational search using a simple genetic algorithm.
    Fang Q; Shortle D
    J Mol Biol; 2006 Jun; 359(5):1456-67. PubMed ID: 16678202
    [TBL] [Abstract][Full Text] [Related]  

  • 7. 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; 48(2):404-22. PubMed ID: 12112706
    [TBL] [Abstract][Full Text] [Related]  

  • 8. Identifying native-like protein structures using physics-based potentials.
    Dominy BN; Brooks CL
    J Comput Chem; 2002 Jan; 23(1):147-60. PubMed ID: 11913380
    [TBL] [Abstract][Full Text] [Related]  

  • 9. Distance dependent centroid to centroid force fields using high resolution decoys.
    Rajgaria R; McAllister SR; Floudas CA
    Proteins; 2008 Feb; 70(3):950-70. PubMed ID: 17847088
    [TBL] [Abstract][Full Text] [Related]  

  • 10. Physical scoring function based on AMBER force field and Poisson-Boltzmann implicit solvent for protein structure prediction.
    Hsieh MJ; Luo R
    Proteins; 2004 Aug; 56(3):475-86. PubMed ID: 15229881
    [TBL] [Abstract][Full Text] [Related]  

  • 11. A reduced protein model with accurate native-structure identification ability.
    Betancourt MR
    Proteins; 2003 Dec; 53(4):889-907. PubMed ID: 14635131
    [TBL] [Abstract][Full Text] [Related]  

  • 12. Can a physics-based, all-atom potential find a protein's native structure among misfolded structures? I. Large scale AMBER benchmarking.
    Wroblewska L; Skolnick J
    J Comput Chem; 2007 Sep; 28(12):2059-66. PubMed ID: 17407093
    [TBL] [Abstract][Full Text] [Related]  

  • 13. Using a hydrophobic contact potential to evaluate native and near-native folds generated by molecular dynamics simulations.
    Huang ES; Subbiah S; Tsai J; Levitt M
    J Mol Biol; 1996 Apr; 257(3):716-25. PubMed ID: 8648635
    [TBL] [Abstract][Full Text] [Related]  

  • 14. Using correlated parameters for improved ranking of protein-protein docking decoys.
    Mitra P; Pal D
    J Comput Chem; 2011 Apr; 32(5):787-96. PubMed ID: 20941737
    [TBL] [Abstract][Full Text] [Related]  

  • 15. A distance-dependent atomic knowledge-based potential and force for discrimination of native structures from decoys.
    Mirzaie M; Eslahchi C; Pezeshk H; Sadeghi M
    Proteins; 2009 Nov; 77(2):454-63. PubMed ID: 19452553
    [TBL] [Abstract][Full Text] [Related]  

  • 16. A physical reference state unifies the structure-derived potential of mean force for protein folding and binding.
    Liu S; Zhang C; Zhou H; Zhou Y
    Proteins; 2004 Jul; 56(1):93-101. PubMed ID: 15162489
    [TBL] [Abstract][Full Text] [Related]  

  • 17. Empirical potential function for simplified protein models: combining contact and local sequence-structure descriptors.
    Zhang J; Chen R; Liang J
    Proteins; 2006 Jun; 63(4):949-60. PubMed ID: 16477624
    [TBL] [Abstract][Full Text] [Related]  

  • 18. ProVal: a protein-scoring function for the selection of native and near-native folds.
    Berglund A; Head RD; Welsh EA; Marshall GR
    Proteins; 2004 Feb; 54(2):289-302. PubMed ID: 14696191
    [TBL] [Abstract][Full Text] [Related]  

  • 19. Predicting protein complex geometries with a neural network.
    Chae MH; Krull F; Lorenzen S; Knapp EW
    Proteins; 2010 Mar; 78(4):1026-39. PubMed ID: 19938153
    [TBL] [Abstract][Full Text] [Related]  

  • 20. Local interactions in protein folding determined through an inverse folding model.
    Bastolla U; Porto M; Ortíz AR
    Proteins; 2008 Apr; 71(1):278-99. PubMed ID: 17932940
    [TBL] [Abstract][Full Text] [Related]  

    [Next]    [New Search]
    of 9.