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

347 related items for PubMed ID: 15504400

  • 1. 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]

  • 2. RNA simulations: probing hairpin unfolding and the dynamics of a GNRA tetraloop.
    Sorin EJ, Engelhardt MA, Herschlag D, Pande VS.
    J Mol Biol; 2002 Apr 05; 317(4):493-506. PubMed ID: 11955005
    [Abstract] [Full Text] [Related]

  • 3. The folding thermodynamics and kinetics of crambin using an all-atom Monte Carlo simulation.
    Shimada J, Kussell EL, Shakhnovich EI.
    J Mol Biol; 2001 Apr 20; 308(1):79-95. PubMed ID: 11302709
    [Abstract] [Full Text] [Related]

  • 4. Dynamics and stability of GCAA tetraloops with 2-aminopurine and purine substitutions.
    Sarzynska J, Kulinski T.
    J Biomol Struct Dyn; 2005 Feb 20; 22(4):425-39. PubMed ID: 15588106
    [Abstract] [Full Text] [Related]

  • 5. Folding of a small RNA hairpin based on simulation with replica exchange molecular dynamics.
    Zuo G, Li W, Zhang J, Wang J, Wang W.
    J Phys Chem B; 2010 May 06; 114(17):5835-9. PubMed ID: 20392088
    [Abstract] [Full Text] [Related]

  • 6. A network of heterogeneous hydrogen bonds in GNRA tetraloops.
    Jucker FM, Heus HA, Yip PF, Moors EH, Pardi A.
    J Mol Biol; 1996 Dec 20; 264(5):968-80. PubMed ID: 9000624
    [Abstract] [Full Text] [Related]

  • 7. Molecular dynamics simulation of the structure, dynamics, and thermostability of the RNA hairpins uCACGg and cUUCGg.
    Villa A, Widjajakusuma E, Stock G.
    J Phys Chem B; 2008 Jan 10; 112(1):134-42. PubMed ID: 18069816
    [Abstract] [Full Text] [Related]

  • 8. 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]

  • 9. 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]

  • 10. The folding pathway of ubiquitin from all-atom molecular dynamics simulations.
    Marianayagam NJ, Jackson SE.
    Biophys Chem; 2004 Oct 01; 111(2):159-71. PubMed ID: 15381313
    [Abstract] [Full Text] [Related]

  • 11. Simulating RNA folding kinetics on approximated energy landscapes.
    Tang X, Thomas S, Tapia L, Giedroc DP, Amato NM.
    J Mol Biol; 2008 Sep 12; 381(4):1055-67. PubMed ID: 18639245
    [Abstract] [Full Text] [Related]

  • 12. Description of RNA folding by "simulated annealing".
    Schmitz M, Steger G.
    J Mol Biol; 1996 Jan 12; 255(1):254-66. PubMed ID: 8568872
    [Abstract] [Full Text] [Related]

  • 13. Exploring the energy landscape of a small RNA hairpin.
    Ma H, Proctor DJ, Kierzek E, Kierzek R, Bevilacqua PC, Gruebele M.
    J Am Chem Soc; 2006 Feb 08; 128(5):1523-30. PubMed ID: 16448122
    [Abstract] [Full Text] [Related]

  • 14. Roles of non-native hydrogen-bonding interaction in helix-coil transition of a single polypeptide as revealed by comparison between Gō-like and non-Gō models.
    Chen Y, Ding J.
    Proteins; 2010 Jul 08; 78(9):2090-100. PubMed ID: 20455265
    [Abstract] [Full Text] [Related]

  • 15. Dynamic competition between alternative structures in viroid RNAs simulated by an RNA folding algorithm.
    Gultyaev AP, van Batenburg FH, Pleij CW.
    J Mol Biol; 1998 Feb 13; 276(1):43-55. PubMed ID: 9514713
    [Abstract] [Full Text] [Related]

  • 16. Effects of base substitutions in an RNA hairpin from molecular dynamics and free energy simulations.
    Sarzynska J, Nilsson L, Kulinski T.
    Biophys J; 2003 Dec 13; 85(6):3445-59. PubMed ID: 14645041
    [Abstract] [Full Text] [Related]

  • 17. The linkage between magnesium binding and RNA folding.
    Misra VK, Draper DE.
    J Mol Biol; 2002 Apr 05; 317(4):507-21. PubMed ID: 11955006
    [Abstract] [Full Text] [Related]

  • 18. The computer simulation of RNA folding pathways using a genetic algorithm.
    Gultyaev AP, van Batenburg FH, Pleij CW.
    J Mol Biol; 1995 Jun 30; 250(1):37-51. PubMed ID: 7541471
    [Abstract] [Full Text] [Related]

  • 19. Monte Carlo simulation of protein folding in the presence of residue-specific binding sites.
    Rossinsky E, Srebnik S.
    Biopolymers; 2005 Dec 05; 79(5):259-68. PubMed ID: 16134169
    [Abstract] [Full Text] [Related]

  • 20. Molecular dynamics study of intrinsic stability in six RNA terminal loop motifs.
    Nyström B, Nilsson L.
    J Biomol Struct Dyn; 2007 Jun 05; 24(6):525-36. PubMed ID: 17508774
    [Abstract] [Full Text] [Related]

    Page: [Next] [New Search]
    of 18.