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 *

221 related articles for article (PubMed ID: 18345664)

  • 1. Quantum mechanical/molecular mechanical simulation study of the mechanism of hairpin ribozyme catalysis.
    Nam K; Gao J; York DM
    J Am Chem Soc; 2008 Apr; 130(14):4680-91. PubMed ID: 18345664
    [TBL] [Abstract][Full Text] [Related]  

  • 2. Extensive molecular dynamics simulations showing that canonical G8 and protonated A38H+ forms are most consistent with crystal structures of hairpin ribozyme.
    Mlýnský V; Banás P; Hollas D; Réblová K; Walter NG; Sponer J; Otyepka M
    J Phys Chem B; 2010 May; 114(19):6642-52. PubMed ID: 20420375
    [TBL] [Abstract][Full Text] [Related]  

  • 3. Evidence for the role of active site residues in the hairpin ribozyme from molecular simulations along the reaction path.
    Heldenbrand H; Janowski PA; Giambaşu G; Giese TJ; Wedekind JE; York DM
    J Am Chem Soc; 2014 Jun; 136(22):7789-92. PubMed ID: 24842535
    [TBL] [Abstract][Full Text] [Related]  

  • 4. Role of Mg2+ in hammerhead ribozyme catalysis from molecular simulation.
    Lee TS; Silva López C; Giambasu GM; Martick M; Scott WG; York DM
    J Am Chem Soc; 2008 Mar; 130(10):3053-64. PubMed ID: 18271579
    [TBL] [Abstract][Full Text] [Related]  

  • 5. Electrostatic interactions in the hairpin ribozyme account for the majority of the rate acceleration without chemical participation by nucleobases.
    Nam K; Gao J; York DM
    RNA; 2008 Aug; 14(8):1501-7. PubMed ID: 18566190
    [TBL] [Abstract][Full Text] [Related]  

  • 6. General acid-base catalysis mediated by nucleobases in the hairpin ribozyme.
    Kath-Schorr S; Wilson TJ; Li NS; Lu J; Piccirilli JA; Lilley DM
    J Am Chem Soc; 2012 Oct; 134(40):16717-24. PubMed ID: 22958171
    [TBL] [Abstract][Full Text] [Related]  

  • 7. QM/MM studies of hairpin ribozyme self-cleavage suggest the feasibility of multiple competing reaction mechanisms.
    Mlýnský V; Banáš P; Walter NG; Šponer J; Otyepka M
    J Phys Chem B; 2011 Dec; 115(47):13911-24. PubMed ID: 22014231
    [TBL] [Abstract][Full Text] [Related]  

  • 8. General base catalysis for cleavage by the active-site cytosine of the hepatitis delta virus ribozyme: QM/MM calculations establish chemical feasibility.
    Banás P; Rulísek L; Hánosová V; Svozil D; Walter NG; Sponer J; Otyepka M
    J Phys Chem B; 2008 Sep; 112(35):11177-87. PubMed ID: 18686993
    [TBL] [Abstract][Full Text] [Related]  

  • 9. Role of an active site adenine in hairpin ribozyme catalysis.
    Kuzmin YI; Da Costa CP; Cottrell JW; Fedor MJ
    J Mol Biol; 2005 Jun; 349(5):989-1010. PubMed ID: 15907933
    [TBL] [Abstract][Full Text] [Related]  

  • 10. Assessment of metal-assisted nucleophile activation in the hepatitis delta virus ribozyme from molecular simulation and 3D-RISM.
    Radak BK; Lee TS; Harris ME; York DM
    RNA; 2015 Sep; 21(9):1566-77. PubMed ID: 26170378
    [TBL] [Abstract][Full Text] [Related]  

  • 11. Role of an active site guanine in hairpin ribozyme catalysis probed by exogenous nucleobase rescue.
    Kuzmin YI; Da Costa CP; Fedor MJ
    J Mol Biol; 2004 Jul; 340(2):233-51. PubMed ID: 15201049
    [TBL] [Abstract][Full Text] [Related]  

  • 12. Molecular dynamics suggest multifunctionality of an adenine imino group in acid-base catalysis of the hairpin ribozyme.
    Ditzler MA; Sponer J; Walter NG
    RNA; 2009 Apr; 15(4):560-75. PubMed ID: 19223444
    [TBL] [Abstract][Full Text] [Related]  

  • 13. Quantum mechanical/molecular mechanical free energy simulations of the self-cleavage reaction in the hepatitis delta virus ribozyme.
    Ganguly A; Thaplyal P; Rosta E; Bevilacqua PC; Hammes-Schiffer S
    J Am Chem Soc; 2014 Jan; 136(4):1483-96. PubMed ID: 24383543
    [TBL] [Abstract][Full Text] [Related]  

  • 14. Mechanistic characterization of the HDV genomic ribozyme: assessing the catalytic and structural contributions of divalent metal ions within a multichannel reaction mechanism.
    Nakano S; Proctor DJ; Bevilacqua PC
    Biochemistry; 2001 Oct; 40(40):12022-38. PubMed ID: 11580278
    [TBL] [Abstract][Full Text] [Related]  

  • 15. Do the hairpin and VS ribozymes share a common catalytic mechanism based on general acid-base catalysis? A critical assessment of available experimental data.
    Wilson TJ; Lilley DM
    RNA; 2011 Feb; 17(2):213-21. PubMed ID: 21173201
    [TBL] [Abstract][Full Text] [Related]  

  • 16. A unique mechanism for RNA catalysis: the role of metal cofactors in hairpin ribozyme cleavage.
    Hampel A; Cowan JA
    Chem Biol; 1997 Jul; 4(7):513-7. PubMed ID: 9263639
    [TBL] [Abstract][Full Text] [Related]  

  • 17. An unusual pH-independent and metal-ion-independent mechanism for hairpin ribozyme catalysis.
    Nesbitt S; Hegg LA; Fedor MJ
    Chem Biol; 1997 Aug; 4(8):619-30. PubMed ID: 9281529
    [TBL] [Abstract][Full Text] [Related]  

  • 18. Catalytic importance of a protonated adenosine in the hairpin ribozyme active site.
    Suydam IT; Levandoski SD; Strobel SA
    Biochemistry; 2010 May; 49(17):3723-32. PubMed ID: 20373826
    [TBL] [Abstract][Full Text] [Related]  

  • 19. In vitro selection of second site revertants analysis of the hairpin ribozyme active site.
    Sargueil B; Hampel KJ; Lambert D; Burke JM
    J Biol Chem; 2003 Dec; 278(52):52783-91. PubMed ID: 14555657
    [TBL] [Abstract][Full Text] [Related]  

  • 20. Water in the active site of an all-RNA hairpin ribozyme and effects of Gua8 base variants on the geometry of phosphoryl transfer.
    Salter J; Krucinska J; Alam S; Grum-Tokars V; Wedekind JE
    Biochemistry; 2006 Jan; 45(3):686-700. PubMed ID: 16411744
    [TBL] [Abstract][Full Text] [Related]  

    [Next]    [New Search]
    of 12.