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 *

1020 related articles for article (PubMed ID: 20000584)

  • 1. Comparison of intrinsic stacking energies of ten unique dinucleotide steps in A-RNA and B-DNA duplexes. Can we determine correct order of stability by quantum-chemical calculations?
    Svozil D; Hobza P; Sponer J
    J Phys Chem B; 2010 Jan; 114(2):1191-203. PubMed ID: 20000584
    [TBL] [Abstract][Full Text] [Related]  

  • 2. The 5-Me of thyminyl (T) interaction with the neighboring nucleobases dictate the relative stability of isosequential DNA-RNA hybrid duplexes.
    Chatterjee S; Pathmasiri W; Chattopadhyaya J
    Org Biomol Chem; 2005 Nov; 3(21):3911-5. PubMed ID: 16240008
    [TBL] [Abstract][Full Text] [Related]  

  • 3. Nature of base stacking: reference quantum-chemical stacking energies in ten unique B-DNA base-pair steps.
    Sponer J; Jurecka P; Marchan I; Luque FJ; Orozco M; Hobza P
    Chemistry; 2006 Mar; 12(10):2854-65. PubMed ID: 16425171
    [TBL] [Abstract][Full Text] [Related]  

  • 4. Stabilization energies of the hydrogen-bonded and stacked structures of nucleic acid base pairs in the crystal geometries of CG, AT, and AC DNA steps and in the NMR geometry of the 5'-d(GCGAAGC)-3' hairpin: Complete basis set calculations at the MP2 and CCSD(T) levels.
    Dabkowska I; Gonzalez HV; Jurecka P; Hobza P
    J Phys Chem A; 2005 Feb; 109(6):1131-6. PubMed ID: 16833422
    [TBL] [Abstract][Full Text] [Related]  

  • 5. Trans Hoogsteen/sugar edge base pairing in RNA. Structures, energies, and stabilities from quantum chemical calculations.
    Mládek A; Sharma P; Mitra A; Bhattacharyya D; Sponer J; Sponer JE
    J Phys Chem B; 2009 Feb; 113(6):1743-55. PubMed ID: 19152254
    [TBL] [Abstract][Full Text] [Related]  

  • 6. Exceptional thermodynamic stability of DNA duplexes modified by nonpolar base analogues is due to increased stacking interactions and favorable solvation: Correlated ab initio calculations and molecular dynamics simulations.
    Reha D; Hocek M; Hobza P
    Chemistry; 2006 Apr; 12(13):3587-95. PubMed ID: 16502452
    [TBL] [Abstract][Full Text] [Related]  

  • 7. Leading RNA tertiary interactions: structures, energies, and water insertion of A-minor and P-interactions. A quantum chemical view.
    Sponer JE; Réblova K; Mokdad A; Sychrovský V; Leszczynski J; Sponer J
    J Phys Chem B; 2007 Aug; 111(30):9153-64. PubMed ID: 17602515
    [TBL] [Abstract][Full Text] [Related]  

  • 8. Sequence-dependent DNA structure: tetranucleotide conformational maps.
    Packer MJ; Dauncey MP; Hunter CA
    J Mol Biol; 2000 Jan; 295(1):85-103. PubMed ID: 10623510
    [TBL] [Abstract][Full Text] [Related]  

  • 9. Thermodynamics of unpaired terminal nucleotides on short RNA helixes correlates with stacking at helix termini in larger RNAs.
    Burkard ME; Kierzek R; Turner DH
    J Mol Biol; 1999 Jul; 290(5):967-82. PubMed ID: 10438596
    [TBL] [Abstract][Full Text] [Related]  

  • 10. The intramolecular impact to the sequence specificity of B-->A transition: low energy conformational variations in AA/TT and GG/CC steps.
    Il'icheva IA; Vlasov PK; Esipova NG; Tumanyan VG
    J Biomol Struct Dyn; 2010 Apr; 27(5):667-93. PubMed ID: 20085384
    [TBL] [Abstract][Full Text] [Related]  

  • 11. Conformational determinants of tandem GU mismatches in RNA: insights from molecular dynamics simulations and quantum mechanical calculations.
    Pan Y; Priyakumar UD; MacKerell AD
    Biochemistry; 2005 Feb; 44(5):1433-43. PubMed ID: 15683228
    [TBL] [Abstract][Full Text] [Related]  

  • 12. On geometries of stacked and H-bonded nucleic acid base pairs determined at various DFT, MP2, and CCSD(T) levels up to the CCSD(T)/complete basis set limit level.
    Dabkowska I; Jurecka P; Hobza P
    J Chem Phys; 2005 May; 122(20):204322. PubMed ID: 15945739
    [TBL] [Abstract][Full Text] [Related]  

  • 13. Stabilization of radical anion states of nucleobases in DNA.
    Voityuk AA
    Phys Chem Chem Phys; 2009 Dec; 11(45):10608-13. PubMed ID: 20145805
    [TBL] [Abstract][Full Text] [Related]  

  • 14. True stabilization energies for the optimal planar hydrogen-bonded and stacked structures of guanine...cytosine, adenine...thymine, and their 9- and 1-methyl derivatives: complete basis set calculations at the MP2 and CCSD(T) levels and comparison with experiment.
    Jurecka P; Hobza P
    J Am Chem Soc; 2003 Dec; 125(50):15608-13. PubMed ID: 14664608
    [TBL] [Abstract][Full Text] [Related]  

  • 15. Stacking interactions and the twist of DNA.
    Cooper VR; Thonhauser T; Puzder A; Schröder E; Lundqvist BI; Langreth DC
    J Am Chem Soc; 2008 Jan; 130(4):1304-8. PubMed ID: 18163624
    [TBL] [Abstract][Full Text] [Related]  

  • 16. Molecular dynamics simulations of B '-DNA: sequence effects on A-tract-induced bending and flexibility.
    McConnell KJ; Beveridge DL
    J Mol Biol; 2001 Nov; 314(1):23-40. PubMed ID: 11724529
    [TBL] [Abstract][Full Text] [Related]  

  • 17. On the role of the cis Hoogsteen:sugar-edge family of base pairs in platforms and triplets-quantum chemical insights into RNA structural biology.
    Sharma P; Sponer JE; Sponer J; Sharma S; Bhattacharyya D; Mitra A
    J Phys Chem B; 2010 Mar; 114(9):3307-20. PubMed ID: 20163171
    [TBL] [Abstract][Full Text] [Related]  

  • 18. Stacking interactions in RNA and DNA: Roll-slide energy hyperspace for ten unique dinucleotide steps.
    Mukherjee S; Kailasam S; Bansal M; Bhattacharyya D
    Biopolymers; 2015 Mar; 103(3):134-47. PubMed ID: 25257334
    [TBL] [Abstract][Full Text] [Related]  

  • 19. Sequence dependence of the stability of RNA hairpin molecules with six nucleotide loops.
    Vecenie CJ; Morrow CV; Zyra A; Serra MJ
    Biochemistry; 2006 Feb; 45(5):1400-7. PubMed ID: 16445282
    [TBL] [Abstract][Full Text] [Related]  

  • 20. Base-base and deoxyribose-base stacking interactions in B-DNA and Z-DNA: a quantum-chemical study.
    Sponer J; Gabb HA; Leszczynski J; Hobza P
    Biophys J; 1997 Jul; 73(1):76-87. PubMed ID: 9199773
    [TBL] [Abstract][Full Text] [Related]  

    [Next]    [New Search]
    of 51.