Concepedia

Base Stacking Models

Base Stacking Models is a computational framework in nucleic acid modeling that characterizes the stabilizing interactions between adjacent nucleotide bases in DNA and RNA through spatially dependent, non-covalent forces, distinguished by its focus on vertical stacking energetics and geometric arrangements.

152

Publications

8.9K

Citations

426

Authors

178

Institutions

Publications per year

2017–2026

13

Parents

Publications

152

Toward True DNA Base-Stacking Energies:  MP2, CCSD(T), and Complete Basis Set Calculations

Pavel Hobza · Journal of the American Chemical Society · 2002 · 394 citations

, , +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

Petr Jurečka, Pavel Hobza · Journal of the American Chemical Society · 2003 · 358 citations

, , +17

2-Aminopurine fluorescence quenching and lifetimes: Role of base stacking

John M. Jean, Kathleen B. Hall · Proceedings of the National Academy of Sciences · 2000 · 349 citations

, , +17

Intercalators. 1. Nature of Stacking Interactions between Intercalators (Ethidium, Daunomycin, Ellipticine, and 4‘,6-Diaminide-2-phenylindole) and DNA Base Pairs. <i>Ab Initio</i> Quantum Chemical, Density Functional Theory, and Empirical Potential Study

David Řeha, Martin Kabeláč, Filip Ryjáček et al. · Journal of the American Chemical Society · 2002 · 302 citations

, , +17

Performance of empirical potentials (AMBER, CFF95, CVFF, CHARMM, OPLS, POLTEV), semiempirical quantum chemical methods (AM1, MNDO/M, PM3), andab initio Hartree-Fock method for interaction of DNA bases: Comparison with nonempirical beyond Hartree-Fock results

Pavel Hobza, Martin Kabel�, Ji � poner et al. · Journal of Computational Chemistry · 1997 · 264 citations

, , +17

1–5 of 152

Authors

426

  1. PH
    Pavel Hobza

    Czech Academy of Sciences, Institute of Organic Chemistry and Biochemistry, Czechia

    11 publications · 2.1K citations

    10

    h-index

  2. CE
    Charles E. Bugg

    University of Alabama at Birmingham, United States

    4 publications · 216 citations

    4

    h-index

  3. NK
    Noriyuki Kurita

    Toyohashi University of Technology, Japan

    4 publications · 198 citations

    4

    h-index

  4. KK
    Kinya Kobayashi

    Hitachi (Japan), Japan

    3 publications · 156 citations

    3

    h-index

  5. UT
    Ulf Thewalt

    Universität Ulm, Germany

    3 publications · 145 citations

    3

    h-index

1–5 of 426

Institutions

178

  1. Czech Academy of Sciences, J. Heyrovský Institute of Physical Chemistry

    Prague, Czechia

    7 h-index

    20 publications

    4.8K citations

  2. Centre National de la Recherche Scientifique

    Paris, France

    6 h-index

    16 publications

    606 citations

  3. Czech Academy of Sciences, Institute of Biophysics

    Brno, Czechia

    6 h-index

    9 publications

    880 citations

  4. Rutgers, The State University of New Jersey

    New Brunswick, United States

    6 h-index

    18 publications

    2K citations

  5. Czech Academy of Sciences

    Prague, Czechia

    4 h-index

    6 publications

    854 citations

  6. Indian Institute of Science Bangalore

    Bengaluru, India

    4 h-index

    8 publications

    110 citations

  7. Toyohashi University of Technology

    Toyohashi, Japan

    4 h-index

    6 publications

    282 citations

  8. Czech Academy of Sciences, Institute of Organic Chemistry and Biochemistry

    Prague, Czechia

    4 h-index

    12 publications

    1.5K citations

1–8 of 178

Venues

  1. Journal of the American Chemical Society

    JACS · 20 publications · 2.1K citations

    18

    h-index

  2. Biopolymers

    10 publications · 601 citations

    10

    h-index

  3. The Journal of Physical Chemistry B

    8 publications · 316 citations

    8

    h-index

  4. Proceedings of the National Academy of Sciences

    PNAS · 7 publications · 759 citations

    7

    h-index

  5. Nucleic Acids Research

    7 publications · 510 citations

    7

    h-index

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