Effect of sequence and metal ions on UVB-induced anti cyclobutane pyrimidine dimer formation in human telomeric DNA sequences

Nucleic Acids Res. 2014 Apr;42(8):5007-19. doi: 10.1093/nar/gku163. Epub 2014 Mar 4.

Abstract

Irradiation of G-quadruplex forming human telomeric DNA with ultraviolet B (UVB) light results in the formation of anti cyclobutane pyrimidine dimers (CPDs) between loop 1 and loop 3 in the presence of potassium ions but not sodium ions. This was unexpected because the sequences involved favor the nonphotoreactive hybrid conformations in K(+) solution, whereas a potentially photoreactive basket conformation is favored in Na(+) solution. To account for these contradictory results, it was proposed that the loops are too far apart in the basket conformation in Na(+) solution but close enough in a two G-tetrad basket-like form 3 conformation that can form in K(+) solution. In the current study, Na(+) was still found to inhibit anti CPD formation in sequences designed to stabilize the form 3 conformation. Furthermore, anti CPD formation in K(+) solution was slower for the sequence previously shown to exist primarily in the proposed photoreactive form 3 conformation than the sequence shown to exist primarily in a nonphotoreactive hybrid conformation. These results suggest that the form 3 conformation is not the principal photoreactive conformation, and that G-quadruplexes in K(+) solution are dynamic and able to access photoreactive conformations more easily than in Na(+) solution.

Publication types

  • Research Support, N.I.H., Extramural

MeSH terms

  • Base Sequence
  • Chromatography, High Pressure Liquid / methods
  • DNA / chemistry*
  • DNA / radiation effects
  • G-Quadruplexes* / radiation effects
  • Humans
  • Mutation
  • Potassium / chemistry*
  • Pyrimidine Dimers / chemistry*
  • Sodium / chemistry
  • Stereoisomerism
  • Telomere / chemistry*
  • Ultraviolet Rays

Substances

  • Pyrimidine Dimers
  • DNA
  • Sodium
  • Potassium