The use of a minimal model to examine the homology search between a long double-stranded DNA and a RecA-single stranded DNA nucleofilament was discussed. The model was used to emphasize the polymeric nature of the search and the ability of double stranded DNA to overcome the difference in pitch between itself and the nucleofilament. The analytical first-passage-time analysis predicted new dependencies on the intracellular fluid viscosity and ionic strength. The results show that the initial homologous recognition involved a three base-pair seed.
Bibliographical noteFunding Information:
K. D. D. acknowledges financial support from the Human Frontier Science Program and Institut Curie. R. F. acknowledges financial support from DGA-CNRS. This work was supported by CNRS Nano-objects/Nanoscience Programme.