Spin symmetry transitions make DNA strands separate. New insight into the mechanism of transcription

Phys Biol. 2015 Dec 10;12(6):066017. doi: 10.1088/1478-3975/12/6/066017.

Abstract

The DFT:B3LYP (6-31G** basis set) method, including the hyperfine and spin-orbit couplings (HFC and SOC, respectively), is used to study the separation of two complementary trinucleotide sequences, (dC-dG-dA)-(dG-dC-dT), upon the action of two Mg(2+) cofactors (a simplified model). The computations reveal a crossing of the singlet (S) potential energy surface by the triplet (T) surface at two distinct points. Within the crossing region the T curve lies below the S curve. Adhering to the concept of the minimal energy path, one can assume that the T path is more favorable compared to that of the S path. The T path is not simple; it consists of two, T+ and T-, curves initially separated by the HFC and SOC. On reaching the second crossing point, both curves merge into the T0 state, which facilitates the T → S transfer. Totally, the process of the two trinucleotide separation (the first step of transcription) appears as the S → T → S symmetry conversion.

Publication types

  • Research Support, U.S. Gov't, Non-P.H.S.

MeSH terms

  • Cations / metabolism
  • Computer Simulation
  • DNA / metabolism*
  • Magnesium / metabolism*
  • Models, Molecular
  • Nucleotides / metabolism*
  • Transcription, Genetic

Substances

  • Cations
  • Nucleotides
  • DNA
  • Magnesium