101
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Gómez Marigliano AC, Varetti EL. Self-Association of Formamide in Carbon Tetrachloride Solutions: An Experimental and Quantum Chemistry Vibrational and Thermodynamic Study. J Phys Chem A 2002. [DOI: 10.1021/jp011060+] [Citation(s) in RCA: 39] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
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102
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Ostrovskii VE, Tsurkova BV, Kadyshevich EA, Gostev BV. Comparison Study of the Acrylamide−Water and Polyacrylamide−Water Systems: Differential Heat Effects, Kinetics, and Mechanisms of Drying and Vapor-Phase Wetting. J Phys Chem B 2001. [DOI: 10.1021/jp013508c] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Victor E. Ostrovskii
- Karpov Institute of Physical Chemistry, ul. Vorontsovo Pole 10, Moscow 103064, Russia
| | - Bella V. Tsurkova
- Karpov Institute of Physical Chemistry, ul. Vorontsovo Pole 10, Moscow 103064, Russia
| | - Elena A. Kadyshevich
- Karpov Institute of Physical Chemistry, ul. Vorontsovo Pole 10, Moscow 103064, Russia
| | - Boris V. Gostev
- Karpov Institute of Physical Chemistry, ul. Vorontsovo Pole 10, Moscow 103064, Russia
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Kabelác M, Hobza P. At nonzero temperatures, stacked structures of methylated nucleic acid base pairs and microhydrated nonmethylated nucleic acid base pairs are favored over planar hydrogen-bonded structures: a molecular dynamics simulations study. Chemistry 2001; 7:2067-74. [PMID: 11411979 DOI: 10.1002/1521-3765(20010518)7:10<2067::aid-chem2067>3.0.co;2-s] [Citation(s) in RCA: 51] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/10/2022]
Abstract
The dynamic structure of all ten possible nucleic acid (NA) base pairs and methylated NA base pairs hydrated by a small number of water molecules (from 1 to 16) was determined by using molecular dynamics simulations in the NVE microcanonical and NVT canonical ensembles with the Cornell force field (W. D. Cornell, P. Cieplak, C. I. Bayly, I. R. Gould, K. M. Merz, D. M. Ferguson, D. C. Spellmeyer, T. Fox, J. E. Caldwell, P. Kollman, J. Am. Chem. Soc. 1995, 117, 5179). The presence of one water molecule does not affect the structure of any hydrogen-bonded (H-bonded) nonmethylated base pair. An equal population of H-bonded and stacked structures of adenine...adenine, adenine...guanine and adenine... thymine pairs is reached if as few as two water molecules are present, while obtaining equal populations of these structures in the case of adenine...cytosine, cytosine...thymine, guanine... guanine and guanine...thymine required the presence of four water molecules, and in the case of guanine...cytosine, six. A comparable population of planar, H-bonded and stacked structures for cytosine...cytosine and thymine... thymine base pairs was only obtained if at least eight water molecules hydrated a pair. Methylation of bases changed the situation dramatically and stacked structures were favoured over H-bonded ones even in the absence of water molecules in most cases. Only in the case of methyl cytosine...methyl cytosine, methyl guanine...methyl guanine and methyl guanine...methyl cytosine pairs were two, two or six water molecules, respectively, needed in order to obtain a comparable population of planar, H-bonded and stacked structures. We believe that these results give clear evidence that the preferred stacked structure of NA base pairs in the microhydrated environment, and also apparently in a regular solvent, is due to the hydrophilic interaction of a small number of water molecules. In the case of methylated bases, it is also due to the fact that the hydrogen atoms most suitable for the formation of H-bonds have been replaced by a methyl group. A preferred stacked structure is, thus, not due to a hydrophobic interaction between a large bulk of water molecules and the base pair, as believed.
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Affiliation(s)
- M Kabelác
- J. Heyrovský Institute of Physical Chemistry, Academy of Sciences of the Czech Republic, Prague
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105
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Liu L, Guo QX. Isokinetic relationship, isoequilibrium relationship, and enthalpy-entropy compensation. Chem Rev 2001; 101:673-95. [PMID: 11712500 DOI: 10.1021/cr990416z] [Citation(s) in RCA: 512] [Impact Index Per Article: 22.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/20/2023]
Affiliation(s)
- L Liu
- Department of Chemistry, University of Science and Technology of China, Hefei 230026, P. R. China.
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106
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Amutha R, Subramanian V, Unni Nair B. Free energy calculation for DNA bases in various solvents using Flory–Huggins theory. Chem Phys Lett 2001. [DOI: 10.1016/s0009-2614(01)00050-1] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]
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107
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Abstract
It has been argued that the stacking of adenyl groups in water must be driven primarily by electrostatic interactions, based upon NMR data showing stacking for two adenyl groups joined by a 3-atom linker but not for two naphthyl groups joined by the same linker. In contrast, theoretical work has suggested that adenine stacking is driven primarily by nonelectrostatic forces, and that electrostatic interactions actually produce a net repulsion between adenines stacking in water. The present study provides evidence that the experimental data for the 3-atom-linked bis-adenyl and bis-naphthyl compounds are consistent with the theory indicating that nonelectrostatic interactions drive adenine stacking. First, a theoretical conformational analysis is found to reproduce the observed ranking of the stacking tendencies of the compounds studied experimentally. A geometric analysis identifies two possible reasons, other than stronger electrostatic interactions, why the 3-atom-linked bis-adenyl compounds should stack more than the bis-naphthyl compounds. First, stacked naphthyl groups tend to lie further apart than stacked adenyl groups, based upon both quantum calculations and crystal structures. This may prevent the bis-naphthyl compound from stacking as extensively as the bis-adenyl compound. Second, geometric analysis shows that more stacked conformations are sterically accessible to the bis-adenyl compound than to the bis-naphthyl compound because the linker is attached to the sides of the adenyl groups, but to the ends of the naphthyl groups. Finally, ab initio quantum mechanics calculations and energy decompositions for relevant conformations of adenine and naphthalene dimers support the view that stacking in these compounds is driven primarily by nonelectrostatic interactions. The present analysis illustrates the importance of considering all aspects of a molecular system when interpreting experimental data, and the value of computer models as an adjunct to chemical intuition.
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Affiliation(s)
- R Luo
- Center for Advanced Research in Biotechnology, Rockville, Maryland 20850-3479, USA
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108
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Rauhut G. Recent Advances in Computing Heteroatom-Rich Five- and Six-Membered Ring Systems. ADVANCES IN HETEROCYCLIC CHEMISTRY 2001. [DOI: 10.1016/s0065-2725(01)81010-2] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 04/04/2023]
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109
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Ito T, Shinohara H, Nishimoto S. Conformational effects on photophysical characteristics of C5-C5'-linked dihydrothymine dimers in solution. Photochem Photobiol 2000; 72:719-26. [PMID: 11140258 DOI: 10.1562/0031-8655(2000)072<0719:ceopco>2.0.co;2] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/19/2022]
Abstract
Photophysical characteristics of N-substituted C5-C5'-linked dihydrothymine dimers (1a,b[meso], meso compounds of [5R,5'S]-bi-5,6-dihydrothymines; 1a,b[rac], racemic compounds of [5R,5'R]-bi-5,6-dihydrothymines and [5S,5'S]-bi-5,6-dihydrothymines) in aqueous solution with varying contents of less-polar aprotic solvent such as tetrahydrofuran or dioxane have been investigated by UV-absorption, and steady-state and time-resolved fluorescence spectroscopies. Among the C5-C5'-linked dimers, (5R,5'S)-bi-5,6-dihydro-1-methylthymine (1a[meso]) showed a red-shifted weak UV-absorption band at 270-350 nm and excimer fluorescence emission at lambda max = 370 nm with a quantum yield (phi F) of approximately 0.1 in phosphate buffer (pH < 10) at 293 K. Racemic compound of 5,6-dihydro-1-methylthymine dimer (1a[rac]), meso and racemic compounds of 5,6-dihydro-1,3-dimethylthymine dimers (1b[meso] and 1b[rac]) in phosphate buffer were nonfluorescent under similar conditions. The UV-absorption and fluorescence spectral characteristics of 1a[meso] in aqueous solution were interpreted in terms of intramolecular stacking interactions between the dihydropyrimidine chromophores leading to a preferential "closed-shell" conformation both in the ground state and the excited singlet state. In basic solutions at pH > pKa = 11.7, the fluorescence quantum yield of 1a[meso] decreased due to a dominant "open-shell" conformation resulting from the electrostatic repulsion between the deprotonated dihydrothymine chromophores of 1a[meso] in a dianion form.
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Affiliation(s)
- T Ito
- Department of Energy and Hydrocarbon Chemistry, Graduate School of Engineering, Kyoto University, Kyoto, Japan
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110
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Kim KS, Tarakeshwar P, Lee JY. Molecular Clusters of pi-Systems: Theoretical Studies of Structures, Spectra, and Origin of Interaction Energies. Chem Rev 2000; 100:4145-86. [PMID: 11749343 DOI: 10.1021/cr990051i] [Citation(s) in RCA: 917] [Impact Index Per Article: 38.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- K S Kim
- National Creative Research Initiative Center for Superfunctional Materials, Department of Chemistry, Division of Molecular and Life Sciences, Pohang University of Science and Technology, San 31, Hyojadong, Pohang 790-784, Korea
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111
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Orozco M, Luque FJ. Theoretical Methods for the Description of the Solvent Effect in Biomolecular Systems. Chem Rev 2000; 100:4187-4226. [PMID: 11749344 DOI: 10.1021/cr990052a] [Citation(s) in RCA: 454] [Impact Index Per Article: 18.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/13/2023]
Affiliation(s)
- Modesto Orozco
- Departament de Bioquímica i Biologia Molecular, Facultat de Química, Universitat de Barcelona, Martí i Franqués 1, E-08028 Barcelona, Spain, and Departament de Fisicoquímica, Facultat de Farmàcia, Universitat de Barcelona, Avgda. Diagonal s/n, E-08028 Barcelona, Spain
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112
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Florián J, Goodman MF, Warshel A. Free-Energy Perturbation Calculations of DNA Destabilization by Base Substitutions: The Effect of Neutral Guanine·Thymine, Adenine·Cytosine and Adenine·Difluorotoluene Mismatches. J Phys Chem B 2000. [DOI: 10.1021/jp001760z] [Citation(s) in RCA: 50] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/08/2023]
Affiliation(s)
- Jan Florián
- Department of Chemistry and Department of Biological Sciences, University of Southern California, Los Angeles, California 90089-1062
| | - Myron F. Goodman
- Department of Chemistry and Department of Biological Sciences, University of Southern California, Los Angeles, California 90089-1062
| | - Arieh Warshel
- Department of Chemistry and Department of Biological Sciences, University of Southern California, Los Angeles, California 90089-1062
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113
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Barsky D, Colvin ME. Guanine−Cytosine Base Pairs in Parallel-Stranded DNA: An ab Initio Study of the Keto−Amino Wobble Pair versus the Enol−Imino Minor Tautomer Pair. J Phys Chem A 2000. [DOI: 10.1021/jp001420d] [Citation(s) in RCA: 32] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Daniel Barsky
- Biology and Biotechnology Research Program, Lawrence Livermore National Lab, L-448, Livermore, California 94550
| | - Michael E. Colvin
- Biology and Biotechnology Research Program, Lawrence Livermore National Lab, L-448, Livermore, California 94550
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114
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Bommarito S, Peyret N, SantaLucia J. Thermodynamic parameters for DNA sequences with dangling ends. Nucleic Acids Res 2000; 28:1929-34. [PMID: 10756193 PMCID: PMC103285 DOI: 10.1093/nar/28.9.1929] [Citation(s) in RCA: 261] [Impact Index Per Article: 10.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022] Open
Abstract
The thermodynamic contributions to duplex formation of all 32 possible single-nucleotide dangling ends on a Watson-Crick pair are reported. In most instances, dangling ends are stabilizing with free energy contributions ranging from +0.48 (GT(A)) to-0.96 kcal/mol (). In comparison, Watson-Crick nearest-neighbor increments range from -0. 58 (TA/AT) to -2.24 (GC/CG) kcal/mol. Hence, in some cases, a dangling end contributes as much to duplex stability as a Watson-Crick A-T base pair. The implications of these results for DNA probe design are discussed. Analysis of the sequence dependence of dangling-end stabilities show that the nature of the closing base pair largely determines the stabilization. For a given closing base pair, however, adenine dangling ends are always more or equally as stable as the other dangling nucleotides. Moreover, 5' dangling ends are more or equally as stabilizing as their 3' counterparts. Comparison of DNA with RNA dangling-end motifs shows that DNA motifs with 5' dangling ends contribute to stability equally or more than their RNA counterparts. Conversely, RNA 3' dangling ends contribute to stability equally or more than their DNA counterparts. This data set has been incorporated into a DNA secondary structure prediction algorithm (DNA MFOLD) (http://mfold2.wustl.edu/mfold/dna/for m1.cgi) as well as a DNA hybridization prediction algorithm (HYTHERtrade mark) (http://jsl1.chem.wayne.edu/Hyther/hythermenu .html).
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Affiliation(s)
- S Bommarito
- Department of Chemistry, Wayne State University, Detroit, MI 48202, USA
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115
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Šponer J, Hobza P. Interaction Energies of Hydrogen-Bonded Formamide Dimer, Formamidine Dimer, and Selected DNA Base Pairs Obtained with Large Basis Sets of Atomic Orbitals. J Phys Chem A 2000. [DOI: 10.1021/jp9943880] [Citation(s) in RCA: 90] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/18/2023]
Affiliation(s)
- Jiří Šponer
- J. Heyrovský Institute of Physical Chemistry, Academy of Sciences of the Czech Republic, Dolejškova 3, 182 23 Prague, Czech Republic
| | - Pavel Hobza
- J. Heyrovský Institute of Physical Chemistry, Academy of Sciences of the Czech Republic, Dolejškova 3, 182 23 Prague, Czech Republic
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116
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Kratochvíl M, Šponer J, Hobza P. Global Minimum of the Adenine···Thymine Base Pair Corresponds Neither to Watson−Crick Nor to Hoogsteen Structures. Molecular Dynamic/Quenching/AMBER and ab Initio beyond Hartree−Fock Studies. J Am Chem Soc 2000. [DOI: 10.1021/ja9936060] [Citation(s) in RCA: 68] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Martin Kratochvíl
- Contribution from the J. Heyrovský Institute of Physical Chemistry, Academy of Sciences of the Czech Republic, 182 23 Prague, Czech Republic
| | - Jiří Šponer
- Contribution from the J. Heyrovský Institute of Physical Chemistry, Academy of Sciences of the Czech Republic, 182 23 Prague, Czech Republic
| | - Pavel Hobza
- Contribution from the J. Heyrovský Institute of Physical Chemistry, Academy of Sciences of the Czech Republic, 182 23 Prague, Czech Republic
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118
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Kong J, White CA, Krylov AI, Sherrill D, Adamson RD, Furlani TR, Lee MS, Lee AM, Gwaltney SR, Adams TR, Ochsenfeld C, Gilbert ATB, Kedziora GS, Rassolov VA, Maurice DR, Nair N, Shao Y, Besley NA, Maslen PE, Dombroski JP, Daschel H, Zhang W, Korambath PP, Baker J, Byrd EFC, Van Voorhis T, Oumi M, Hirata S, Hsu CP, Ishikawa N, Florian J, Warshel A, Johnson BG, Gill PMW, Head-Gordon M, Pople JA. Q-Chem 2.0: a high-performanceab initio electronic structure program package. J Comput Chem 2000. [DOI: 10.1002/1096-987x(200012)21:16<1532::aid-jcc10>3.0.co;2-w] [Citation(s) in RCA: 570] [Impact Index Per Article: 23.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022]
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119
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Kong J, White CA, Krylov AI, Sherrill D, Adamson RD, Furlani TR, Lee MS, Lee AM, Gwaltney SR, Adams TR, Ochsenfeld C, Gilbert ATB, Kedziora GS, Rassolov VA, Maurice DR, Nair N, Shao Y, Besley NA, Maslen PE, Dombroski JP, Daschel H, Zhang W, Korambath PP, Baker J, Byrd EFC, Van Voorhis T, Oumi M, Hirata S, Hsu CP, Ishikawa N, Florian J, Warshel A, Johnson BG, Gill PMW, Head-Gordon M, Pople JA. Q-Chem 2.0: a high-performanceab initio electronic structure program package. J Comput Chem 2000. [DOI: 10.1002/1096-987x(200012)21:16%3c1532::aid-jcc10%3e3.0.co;2-w] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022]
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120
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Šponer J, Šponer JE, Gorb L, Leszczynski J, Lippert B. Metal-Stabilized Rare Tautomers and Mispairs of DNA Bases: N6-Metalated Adenine and N4-Metalated Cytosine, Theoretical and Experimental Views. J Phys Chem A 1999. [DOI: 10.1021/jp992337x] [Citation(s) in RCA: 138] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/23/2023]
Affiliation(s)
- Jiří Šponer
- J. Heyrovský Institute of Physical Chemistry, Academy of Sciences of the Czech Republic, Dolejškova 3, 182 23 Prague, Czech Republic, Institute of Biophysics, Academy of Sciences of the Czech Republic, Královopolská 135, 612 65 Brno, Czech Republic, Department of Chemistry and Computational Center for Molecular Structure and Interactions, Jackson State University, Jackson, Mississippi 39217, and Department of Chemistry, University of Dortmund, 44221 Dortmund, Germany
| | - Judit E. Šponer
- J. Heyrovský Institute of Physical Chemistry, Academy of Sciences of the Czech Republic, Dolejškova 3, 182 23 Prague, Czech Republic, Institute of Biophysics, Academy of Sciences of the Czech Republic, Královopolská 135, 612 65 Brno, Czech Republic, Department of Chemistry and Computational Center for Molecular Structure and Interactions, Jackson State University, Jackson, Mississippi 39217, and Department of Chemistry, University of Dortmund, 44221 Dortmund, Germany
| | - Leonid Gorb
- J. Heyrovský Institute of Physical Chemistry, Academy of Sciences of the Czech Republic, Dolejškova 3, 182 23 Prague, Czech Republic, Institute of Biophysics, Academy of Sciences of the Czech Republic, Královopolská 135, 612 65 Brno, Czech Republic, Department of Chemistry and Computational Center for Molecular Structure and Interactions, Jackson State University, Jackson, Mississippi 39217, and Department of Chemistry, University of Dortmund, 44221 Dortmund, Germany
| | - Jerzy Leszczynski
- J. Heyrovský Institute of Physical Chemistry, Academy of Sciences of the Czech Republic, Dolejškova 3, 182 23 Prague, Czech Republic, Institute of Biophysics, Academy of Sciences of the Czech Republic, Královopolská 135, 612 65 Brno, Czech Republic, Department of Chemistry and Computational Center for Molecular Structure and Interactions, Jackson State University, Jackson, Mississippi 39217, and Department of Chemistry, University of Dortmund, 44221 Dortmund, Germany
| | - Bernhard Lippert
- J. Heyrovský Institute of Physical Chemistry, Academy of Sciences of the Czech Republic, Dolejškova 3, 182 23 Prague, Czech Republic, Institute of Biophysics, Academy of Sciences of the Czech Republic, Královopolská 135, 612 65 Brno, Czech Republic, Department of Chemistry and Computational Center for Molecular Structure and Interactions, Jackson State University, Jackson, Mississippi 39217, and Department of Chemistry, University of Dortmund, 44221 Dortmund, Germany
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121
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Plokhotnichenko AM, Radchenko ED, Stepanian SG, Adamowicz L. p-Quinone Dimers: H-Bonding vs Stacked Interaction. Matrix-Isolation Infrared and ab Initio Study. J Phys Chem A 1999. [DOI: 10.1021/jp991869a] [Citation(s) in RCA: 17] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
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122
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Hobza P, Sponer J. Structure, energetics, and dynamics of the nucleic Acid base pairs: nonempirical ab initio calculations. Chem Rev 1999; 99:3247-76. [PMID: 11749516 DOI: 10.1021/cr9800255] [Citation(s) in RCA: 814] [Impact Index Per Article: 32.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/20/2023]
Affiliation(s)
- P Hobza
- J. Heyrovský Institute of Physical Chemistry, Academy of Sciences of the Czech Republic, Dolejskova 3, 182 23 Prague 8, Czech Republic
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123
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Florián J, Warshel A. Calculations of Hydration Entropies of Hydrophobic, Polar, and Ionic Solutes in the Framework of the Langevin Dipoles Solvation Model. J Phys Chem B 1999. [DOI: 10.1021/jp992041r] [Citation(s) in RCA: 119] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Jan Florián
- Department of Chemistry, University of Southern California, Los Angeles, California 90089-1062
| | - Arieh Warshel
- Department of Chemistry, University of Southern California, Los Angeles, California 90089-1062
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124
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Stofer E, Chipot C, Lavery R. Free Energy Calculations of Watson−Crick Base Pairing in Aqueous Solution. J Am Chem Soc 1999. [DOI: 10.1021/ja991092z] [Citation(s) in RCA: 44] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/17/2022]
Affiliation(s)
- E. Stofer
- Contribution from the Laboratoire de Biochimie Théorique, CNRS UPR 9080, Institut de Biologie Physico-Chimique, 13 rue Pierre et Marie Curie, Paris 75005, France, and Laboratoire de Chimie Théorique, CNRS UMR 7565, Université Henri Poincaré-Nancy I, BP 239, Vandoeuvre-les-Nancy, France
| | - C. Chipot
- Contribution from the Laboratoire de Biochimie Théorique, CNRS UPR 9080, Institut de Biologie Physico-Chimique, 13 rue Pierre et Marie Curie, Paris 75005, France, and Laboratoire de Chimie Théorique, CNRS UMR 7565, Université Henri Poincaré-Nancy I, BP 239, Vandoeuvre-les-Nancy, France
| | - R. Lavery
- Contribution from the Laboratoire de Biochimie Théorique, CNRS UPR 9080, Institut de Biologie Physico-Chimique, 13 rue Pierre et Marie Curie, Paris 75005, France, and Laboratoire de Chimie Théorique, CNRS UMR 7565, Université Henri Poincaré-Nancy I, BP 239, Vandoeuvre-les-Nancy, France
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125
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Cramer CJ, Truhlar DG. Implicit Solvation Models: Equilibria, Structure, Spectra, and Dynamics. Chem Rev 1999; 99:2161-2200. [PMID: 11849023 DOI: 10.1021/cr960149m] [Citation(s) in RCA: 1727] [Impact Index Per Article: 69.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Christopher J. Cramer
- Department of Chemistry and Supercomputer Institute, University of Minnesota, Minneapolis, Minnesota 55455-0431
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126
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Alemán C. Hydration of cytosine using combined discrete/SCRF models: influence of the number of discrete solvent molecules. Chem Phys 1999. [DOI: 10.1016/s0301-0104(99)00122-6] [Citation(s) in RCA: 55] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
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