New evidence that the hydrophobic effect and dispersion are not major driving forces for nucleotide base stacking.
作者信息
Gellman S H, Haque T S, Newcomb L F
出版信息
Biophys J. 1996 Dec;71(6):3523-6. doi: 10.1016/S0006-3495(96)79547-4.
Abstract
摘要
相似文献
1
New evidence that the hydrophobic effect and dispersion are not major driving forces for nucleotide base stacking.有新证据表明，疏水作用和色散力并非核苷酸碱基堆积的主要驱动力。
Biophys J. 1996 Dec;71(6):3523-6. doi: 10.1016/S0006-3495(96)79547-4.
2
Potential of mean force calculations of the stacking-unstacking process in single-stranded deoxyribodinucleoside monophosphates.单链脱氧核糖核苷单磷酸堆积-解堆积过程的平均力计算潜力。
Biophys J. 1995 Dec;69(6):2277-85. doi: 10.1016/S0006-3495(95)80098-6.
3
Influences of ribonucleotide on a duplex conformation and its thermal stability: study with the chimeric RNA-DNA strands.核糖核苷酸对双链构象及其热稳定性的影响：嵌合RNA-DNA链的研究
J Am Chem Soc. 2004 Feb 4;126(4):1088-95. doi: 10.1021/ja037314h.
4
Thermodynamics of unpaired terminal nucleotides on short RNA helixes correlates with stacking at helix termini in larger RNAs.短RNA螺旋上未配对末端核苷酸的热力学与较大RNA中螺旋末端的堆积相关。
J Mol Biol. 1999 Jul 30;290(5):967-82. doi: 10.1006/jmbi.1999.2906.
5
3'-modified oligo (2'-O-methylribonucleotides) as improved probes for hybridization with RNA.
Nucleosides Nucleotides Nucleic Acids. 2005;24(5-7):527-31. doi: 10.1081/ncn-200061795.
6
A code relating sequence to structure in nucleic acids.一种将核酸序列与结构相关联的编码。
Nucleosides Nucleotides Nucleic Acids. 2001 Apr-Jul;20(4-7):841-6. doi: 10.1081/NCN-100002442.
7
A comparison of RNA with DNA in template-directed synthesis.模板导向合成中RNA与DNA的比较。
Helv Chim Acta. 2000 Sep-Oct;83(8):1678-84. doi: 10.1002/1522-2675(20000809)83:8<1678::AID-HLCA1678>3.0.CO;2-P.
8
Comparison of the thermodynamic stabilities and solution conformations of DNA.RNA hybrids containing purine-rich and pyrimidine-rich strands with DNA and RNA duplexes.富含嘌呤链和富含嘧啶链的DNA.RNA杂交体与DNA和RNA双链体的热力学稳定性及溶液构象比较。
Biochemistry. 1996 Sep 24;35(38):12538-48. doi: 10.1021/bi960948z.
9
Spectroscopic and thermodynamic studies of DNA duplexes containing alpha-anomeric C, A, and G nucleotides and polarity reversals: coexistence of localized parallel and antiparallel DNA.含α-异头碳、腺嘌呤和鸟嘌呤核苷酸及极性反转的DNA双链体的光谱和热力学研究：局部平行和反平行DNA的共存
Biochemistry. 1997 Aug 12;36(32):9715-25. doi: 10.1021/bi9706071.
10
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?比较 A-RNA 和 B-DNA 双链体中十个独特二核苷酸碱基对的内在堆积能。我们能否通过量子化学计算确定正确的稳定性顺序？
J Phys Chem B. 2010 Jan 21;114(2):1191-203. doi: 10.1021/jp910788e.
引用本文的文献
1
"End-to-end" stacking of small dsRNA.小 dsRNA 的端到端堆积。
RNA. 2019 Feb;25(2):239-246. doi: 10.1261/rna.068130.118. Epub 2018 Nov 7.
2
Factors Contributing to Aromatic Stacking in Water: Evaluation in the Context of DNA.水中芳香堆积的影响因素：在DNA背景下的评估
J Am Chem Soc. 2000 Feb 10;122(10):2213-2222. doi: 10.1021/ja9934854.
3
Predicting helical coaxial stacking in RNA multibranch loops.预测RNA多分支环中的螺旋同轴堆积
RNA. 2007 Jul;13(7):939-51. doi: 10.1261/rna.305307. Epub 2007 May 16.
4
Structural specificity conferred by a group I RNA peripheral element.由I类RNA外围元件赋予的结构特异性。
Proc Natl Acad Sci U S A. 2005 Jul 19;102(29):10176-81. doi: 10.1073/pnas.0501498102. Epub 2005 Jul 11.
5
Parallel multiplex thermodynamic analysis of coaxial base stacking in DNA duplexes by oligodeoxyribonucleotide microchips.利用寡脱氧核糖核苷酸微芯片对DNA双链体中同轴碱基堆积进行平行多重热力学分析。
Nucleic Acids Res. 2001 Jun 1;29(11):2303-13. doi: 10.1093/nar/29.11.2303.
6
The physical basis of nucleic acid base stacking in water.水中核酸碱基堆积的物理基础。
Biophys J. 2001 Jan;80(1):140-8. doi: 10.1016/S0006-3495(01)76001-8.
7
Thermodynamic parameters for DNA sequences with dangling ends.具有悬垂末端的DNA序列的热力学参数。
Nucleic Acids Res. 2000 May 1;28(9):1929-34. doi: 10.1093/nar/28.9.1929.
本文引用的文献
1
A free energy analysis of nucleic acid base stacking in aqueous solution.水溶液中核酸碱基堆积的自由能分析。
Biophys J. 1995 Oct;69(4):1528-35. doi: 10.1016/S0006-3495(95)80023-8.
2
Solvent effects on thermodynamics of double-helix formation in (dG-dC)3.溶剂对(dG-dC)3中双螺旋形成热力学的影响。
Biochemistry. 1981 Mar 17;20(6):1413-8. doi: 10.1021/bi00509a002.
3
Stacking properties of a highly hydrophobic dinucleotide sequence, N6, N6-dimethyladenylyl(3' leads to 5')N6, N6-dimethyladenosine, occurring in 16--18-S ribosomal RNA.存在于16 - 18S核糖体RNA中的高度疏水二核苷酸序列N6，N6 - 二甲基腺苷酰基（3'→5'）N6，N6 - 二甲基腺苷的堆积特性
Eur J Biochem. 1980 Aug;109(1):33-8. doi: 10.1111/j.1432-1033.1980.tb04764.x.
4
The importance of London dispersion forces in the maintenance of the deoxyribonucleic acid helix.伦敦色散力在维持脱氧核糖核酸双螺旋结构中的重要性。
Biochem Biophys Res Commun. 1966 Jun 21;23(6):861-7. doi: 10.1016/0006-291x(66)90567-5.
5
Stereochemistry of nucleic acids and their constituents. X. Solid-state base-stacking patterns in nucleic acid constituents and polynucleotides.核酸及其成分的立体化学。X.核酸成分和多核苷酸中的固态碱基堆积模式。
Biopolymers. 1971;10(1):175-219. doi: 10.1002/bip.360100113.
6
Thermodynamic studies of a model system for hydrophobic bonding.疏水键合模型系统的热力学研究。
Biochemistry. 1968 May;7(5):1823-7. doi: 10.1021/bi00845a029.
7
Base stacking and molecular polarizability: effect of a methyl group in the 5-position of pyrimidines.碱基堆积与分子极化率：嘧啶5位上甲基的影响
Biochem Biophys Res Commun. 1987 Oct 29;148(2):790-4. doi: 10.1016/0006-291x(87)90945-4.
8
Origin of DNA helical structure and its sequence dependence.DNA螺旋结构的起源及其序列依赖性。
Biochemistry. 1988 Nov 1;27(22):8498-502. doi: 10.1021/bi00422a030.
Zotero 插件