IDEAS home Printed from https://ideas.repec.org/a/eee/phsmap/v634y2024ics0378437123010324.html
   My bibliography  Save this article

Exclusion principle between the physicochemical properties of complementary nucleobases and symmetry breaking in double-stranded DNA conformations

Author

Listed:
  • Hernandez-Cabrera, F.
  • Rodríguez-Gutiérrez, R.
  • Javier Almaguer, Francisco
  • Grimaldo-Reyna, M.E.

Abstract

The information contained in DNA is encoded in a double helix formed by two antiparallel and complementary sequences of nucleotides, which are stabilized by hydrogen bonds. At physiological conditions, each nucleobase possesses three main characteristics; molecular structure, functional group, and orientation in the double helix. These properties produce steric constraints that allow only complementary interactions between nucleobase pairs to form double or triple hydrogen bonds. In this work, a mathematical model is proposed to describe the pairing interactions between nucleobases according to their physicochemical properties (structure, functional group and orientation). The results suggest that stable hydrogen bonds derived from nucleobase interactions can be represented by a set of 4 hermitian matrices and a Clifford Algebra Cl(4,0). Moreover, it is shown that the allowed interactions between pairs of nucleobases enable the formulation of an exclusion principle between the states of the observables. Finally, the mathematical representation of the hydrogen bonding between complementary nucleobases suggests a preferential orientation (chirality), which could be associated with the major groove in the double helix structure of B-DNA.

Suggested Citation

  • Hernandez-Cabrera, F. & Rodríguez-Gutiérrez, R. & Javier Almaguer, Francisco & Grimaldo-Reyna, M.E., 2024. "Exclusion principle between the physicochemical properties of complementary nucleobases and symmetry breaking in double-stranded DNA conformations," Physica A: Statistical Mechanics and its Applications, Elsevier, vol. 634(C).
    • Handle: RePEc:eee:phsmap:v:634:y:2024:i:c:s0378437123010324
    DOI: 10.1016/j.physa.2023.129477
    as

    Download full text from publisher

    File URL: http://www.sciencedirect.com/science/article/pii/S0378437123010324
    Download Restriction: Full text for ScienceDirect subscribers only. Journal offers the option of making the article available online on Science direct for a fee of $3,000
    File URL: https://libkey.io/10.1016/j.physa.2023.129477?utm_source=ideas
    LibKey link: if access is restricted and if your library uses this service, LibKey will redirect you to where you can use your library subscription to access this item
    ---><---

    As the access to this document is restricted, you may want to search for a different version of it.

    Corrections

    All material on this site has been provided by the respective publishers and authors. You can help correct errors and omissions. When requesting a correction, please mention this item's handle: RePEc:eee:phsmap:v:634:y:2024:i:c:s0378437123010324. See general information about how to correct material in RePEc.

    If you have authored this item and are not yet registered with RePEc, we encourage you to do it here. This allows to link your profile to this item. It also allows you to accept potential citations to this item that we are uncertain about.

    We have no bibliographic references for this item. You can help adding them by using this form .

    If you know of missing items citing this one, you can help us creating those links by adding the relevant references in the same way as above, for each refering item. If you are a registered author of this item, you may also want to check the "citations" tab in your RePEc Author Service profile, as there may be some citations waiting for confirmation.

    For technical questions regarding this item, or to correct its authors, title, abstract, bibliographic or download information, contact: Catherine Liu (email available below). General contact details of provider: http://www.journals.elsevier.com/physica-a-statistical-mechpplications/ .

    Please note that corrections may take a couple of weeks to filter through the various RePEc services.

    IDEAS is a RePEc service. RePEc uses bibliographic data supplied by the respective publishers.