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79 related items for PubMed ID: 16374871

  • 1. Untangling influences of hydrophobicity on protein sequences and structures.
    Yahyanejad M, Burge CB, Kardar M.
    Proteins; 2006 Mar 01; 62(4):1101-6. PubMed ID: 16374871
    [Abstract] [Full Text] [Related]

  • 2. QBES: predicting real values of solvent accessibility from sequences by efficient, constrained energy optimization.
    Xu Z, Zhang C, Liu S, Zhou Y.
    Proteins; 2006 Jun 01; 63(4):961-6. PubMed ID: 16514609
    [Abstract] [Full Text] [Related]

  • 3. Looking at structure, stability, and evolution of proteins through the principal eigenvector of contact matrices and hydrophobicity profiles.
    Bastolla U, Porto M, Roman HE, Vendruscolo M.
    Gene; 2005 Mar 14; 347(2):219-30. PubMed ID: 15777696
    [Abstract] [Full Text] [Related]

  • 4. Effective connectivity profile: a structural representation that evidences the relationship between protein structures and sequences.
    Bastolla U, Ortíz AR, Porto M, Teichert F.
    Proteins; 2008 Dec 14; 73(4):872-88. PubMed ID: 18536008
    [Abstract] [Full Text] [Related]

  • 5. Solvent accessible surface area of amino acid residues in globular proteins: correlation of apparent transfer free energies with experimental hydrophobicity scales.
    Shaytan AK, Shaitan KV, Khokhlov AR.
    Biomacromolecules; 2009 May 11; 10(5):1224-37. PubMed ID: 19334678
    [Abstract] [Full Text] [Related]

  • 6. Direct observation of salt effects on molecular interactions through explicit-solvent molecular dynamics simulations: differential effects on electrostatic and hydrophobic interactions and comparisons to Poisson-Boltzmann theory.
    Thomas AS, Elcock AH.
    J Am Chem Soc; 2006 Jun 21; 128(24):7796-806. PubMed ID: 16771493
    [Abstract] [Full Text] [Related]

  • 7. Carbohydrate-binding proteins: Dissecting ligand structures through solvent environment occupancy.
    Gauto DF, Di Lella S, Guardia CM, Estrin DA, Martí MA.
    J Phys Chem B; 2009 Jun 25; 113(25):8717-24. PubMed ID: 19485380
    [Abstract] [Full Text] [Related]

  • 8. Principal eigenvector of contact matrices and hydrophobicity profiles in proteins.
    Bastolla U, Porto M, Roman HE, Vendruscolo M.
    Proteins; 2005 Jan 01; 58(1):22-30. PubMed ID: 15523667
    [Abstract] [Full Text] [Related]

  • 9. Another look at the conditions for the extraction of protein knowledge-based potentials.
    Betancourt MR.
    Proteins; 2009 Jul 01; 76(1):72-85. PubMed ID: 19089977
    [Abstract] [Full Text] [Related]

  • 10. Inference of the solvation energy parameters of amino acids using maximum entropy approach.
    Hoang TX, Seno F, Trovato A, Banavar JR, Maritan A.
    J Chem Phys; 2008 Jul 21; 129(3):035102. PubMed ID: 18647046
    [Abstract] [Full Text] [Related]

  • 11. Simple solvation potential for coarse-grained models of proteins.
    Bhattacharyay A, Trovato A, Seno F.
    Proteins; 2007 May 01; 67(2):285-92. PubMed ID: 17286285
    [Abstract] [Full Text] [Related]

  • 12. Quantitative expression of protein heterogeneity: Response of amino acid side chains to their local environment.
    Bandyopadhyay D, Mehler EL.
    Proteins; 2008 Aug 01; 72(2):646-59. PubMed ID: 18247345
    [Abstract] [Full Text] [Related]

  • 13. Comprehensive analysis of the helix-X-helix motif in soluble proteins.
    Deville J, Rey J, Chabbert M.
    Proteins; 2008 Jul 01; 72(1):115-35. PubMed ID: 18214950
    [Abstract] [Full Text] [Related]

  • 14. Look-up tables for protein solvent accessibility prediction and nearest neighbor effect analysis.
    Wang JY, Ahmad S, Gromiha MM, Sarai A.
    Biopolymers; 2004 Oct 15; 75(3):209-16. PubMed ID: 15378480
    [Abstract] [Full Text] [Related]

  • 15. Exploring the protein G helix free-energy surface by solute tempering metadynamics.
    Camilloni C, Provasi D, Tiana G, Broglia RA.
    Proteins; 2008 Jun 15; 71(4):1647-54. PubMed ID: 18076039
    [Abstract] [Full Text] [Related]

  • 16. Description of atomic burials in compact globular proteins by Fermi-Dirac probability distributions.
    Gomes AL, de Rezende JR, Pereira de Araújo AF, Shakhnovich EI.
    Proteins; 2007 Feb 01; 66(2):304-20. PubMed ID: 17109406
    [Abstract] [Full Text] [Related]

  • 17. Infrared and vibrational CD spectra of partially solvated alpha-helices: DFT-based simulations with explicit solvent.
    Turner DR, Kubelka J.
    J Phys Chem B; 2007 Feb 22; 111(7):1834-45. PubMed ID: 17256894
    [Abstract] [Full Text] [Related]

  • 18. Local sequence patterns of hydrophobicity and solvent accessibility in soluble globular proteins.
    Lipman DJ, Pastor RW, Lee B.
    Biopolymers; 1987 Jan 22; 26(1):17-26. PubMed ID: 3801594
    [No Abstract] [Full Text] [Related]

  • 19. Real-SPINE: an integrated system of neural networks for real-value prediction of protein structural properties.
    Dor O, Zhou Y.
    Proteins; 2007 Jul 01; 68(1):76-81. PubMed ID: 17397056
    [Abstract] [Full Text] [Related]

  • 20. Molecular principles of the interactions of disordered proteins.
    Mészáros B, Tompa P, Simon I, Dosztányi Z.
    J Mol Biol; 2007 Sep 14; 372(2):549-61. PubMed ID: 17681540
    [Abstract] [Full Text] [Related]

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