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.


Pubmed for Handhelds

PUBMED FOR HANDHELDS

Journal Abstract Search

456 related items for PubMed ID: 16913813

  • 1. Monte Carlo vs molecular dynamics for all-atom polypeptide folding simulations.
    Ulmschneider JP, Ulmschneider MB, Di Nola A.
    J Phys Chem B; 2006 Aug 24; 110(33):16733-42. PubMed ID: 16913813
    [Abstract] [Full Text] [Related]

  • 2. Monte Carlo folding of trans-membrane helical peptides in an implicit generalized Born membrane.
    Ulmschneider JP, Ulmschneider MB, Di Nola A.
    Proteins; 2007 Nov 01; 69(2):297-308. PubMed ID: 17600830
    [Abstract] [Full Text] [Related]

  • 3. Study of the Villin headpiece folding dynamics by combining coarse-grained Monte Carlo evolution and all-atom molecular dynamics.
    De Mori GM, Colombo G, Micheletti C.
    Proteins; 2005 Feb 01; 58(2):459-71. PubMed ID: 15521059
    [Abstract] [Full Text] [Related]

  • 4. Reproducible polypeptide folding and structure prediction using molecular dynamics simulations.
    Seibert MM, Patriksson A, Hess B, van der Spoel D.
    J Mol Biol; 2005 Nov 18; 354(1):173-83. PubMed ID: 16236315
    [Abstract] [Full Text] [Related]

  • 5. Convergence and sampling efficiency in replica exchange simulations of peptide folding in explicit solvent.
    Periole X, Mark AE.
    J Chem Phys; 2007 Jan 07; 126(1):014903. PubMed ID: 17212515
    [Abstract] [Full Text] [Related]

  • 6. Towards realistic description of collective motions in the lattice protein folding models.
    Yesylevskyy SO, Demchenko AP.
    Biophys Chem; 2004 Apr 01; 109(1):17-40. PubMed ID: 15059657
    [Abstract] [Full Text] [Related]

  • 7. Polypeptide folding using Monte Carlo sampling, concerted rotation, and continuum solvation.
    Ulmschneider JP, Jorgensen WL.
    J Am Chem Soc; 2004 Feb 18; 126(6):1849-57. PubMed ID: 14871118
    [Abstract] [Full Text] [Related]

  • 8. Comparative molecular dynamics and Monte Carlo study of statistical properties for coarse-grained heteropolymers.
    Schluttig J, Bachmann M, Janke W.
    J Comput Chem; 2008 Nov 30; 29(15):2603-12. PubMed ID: 18478584
    [Abstract] [Full Text] [Related]

  • 9. Exploring the protein folding free energy landscape: coupling replica exchange method with P3ME/RESPA algorithm.
    Zhou R.
    J Mol Graph Model; 2004 May 30; 22(5):451-63. PubMed ID: 15099840
    [Abstract] [Full Text] [Related]

  • 10. All-atom Monte Carlo simulation of GCAA RNA folding.
    Nivón LG, Shakhnovich EI.
    J Mol Biol; 2004 Nov 12; 344(1):29-45. PubMed ID: 15504400
    [Abstract] [Full Text] [Related]

  • 11. Biased fragment distribution in MC simulation of protein folding.
    Martineau E, L'Heureux PJ, Gunn JR.
    J Comput Chem; 2004 Nov 30; 25(15):1895-903. PubMed ID: 15378533
    [Abstract] [Full Text] [Related]

  • 12. A new Hybrid Monte Carlo algorithm for protein potential function test and structure refinement.
    Zhang H.
    Proteins; 1999 Mar 01; 34(4):464-71. PubMed ID: 10081959
    [Abstract] [Full Text] [Related]

  • 13. Efficient Monte Carlo trial moves for polypeptide simulations.
    Betancourt MR.
    J Chem Phys; 2005 Nov 01; 123(17):174905. PubMed ID: 16375567
    [Abstract] [Full Text] [Related]

  • 14. Thermodynamics and folding pathways of trpzip2: an accelerated molecular dynamics simulation study.
    Yang L, Shao Q, Gao YQ.
    J Phys Chem B; 2009 Jan 22; 113(3):803-8. PubMed ID: 19113829
    [Abstract] [Full Text] [Related]

  • 15. Generalized-ensemble algorithms: enhanced sampling techniques for Monte Carlo and molecular dynamics simulations.
    Okamoto Y.
    J Mol Graph Model; 2004 May 22; 22(5):425-39. PubMed ID: 15099838
    [Abstract] [Full Text] [Related]

  • 16. Membrane adsorption, folding, insertion and translocation of synthetic trans-membrane peptides.
    Ulmschneider MB, Ulmschneider JP.
    Mol Membr Biol; 2008 Apr 22; 25(3):245-57. PubMed ID: 18428040
    [Abstract] [Full Text] [Related]

  • 17. Monte Carlo simulations of biomolecules: The MC module in CHARMM.
    Hu J, Ma A, Dinner AR.
    J Comput Chem; 2006 Jan 30; 27(2):203-16. PubMed ID: 16323162
    [Abstract] [Full Text] [Related]

  • 18. The equilibrium properties and folding kinetics of an all-atom Go model of the Trp-cage.
    Linhananta A, Boer J, MacKay I.
    J Chem Phys; 2005 Mar 15; 122(11):114901. PubMed ID: 15836251
    [Abstract] [Full Text] [Related]

  • 19. Fast protein structure prediction using Monte Carlo simulations with modal moves.
    Carnevali P, Tóth G, Toubassi G, Meshkat SN.
    J Am Chem Soc; 2003 Nov 26; 125(47):14244-5. PubMed ID: 14624550
    [Abstract] [Full Text] [Related]

  • 20. Sampling efficiency in explicit and implicit membrane environments studied by peptide folding simulations.
    Ulmschneider JP, Ulmschneider MB.
    Proteins; 2009 May 15; 75(3):586-97. PubMed ID: 19003985
    [Abstract] [Full Text] [Related]

    Page: [Next] [New Search]
    of 23.