Crossref journal-article
Cold Spring Harbor Laboratory
Genes & Development (246)
Abstract

Traditionally, recombination reactions promoted by RecA-like proteins initiate by forming a nucleoprotein filament on a single-stranded DNA (ssDNA), which then pairs with homologous double-stranded DNA (dsDNA). In this paper, we describe a novel pairing process that occurs in an unconventional manner: RecA protein polymerizes along dsDNA to form an active nucleoprotein filament that can pair and exchange strands with homologous ssDNA. Our results demonstrate that this “inverse” reaction is a unique, highly efficient DNA strand exchange reaction that is not due to redistribution of RecA protein from dsDNA to the homologous ssDNA partner. Finally, we demonstrate that the RecA protein–dsDNA filament can also pair and promote strand exchange with ssRNA. This inverse RNA strand exchange reaction is likely responsible for R-loop formation that is required for recombination-dependent DNA replication.

Bibliography

Zaitsev, E. N., & Kowalczykowski, S. C. (2000). A novel pairing process promoted by Escherichia coli RecA protein: inverse DNA and RNA strand exchange. Genes & Development, 14(6), 740–749.

Authors 2
  1. Eugene N. Zaitsev (first)
  2. Stephen C. Kowalczykowski (additional)
References 48 Referenced 68
  1. 10.1101/gad.6.9.1679
  2. 10.1016/S0021-9258(18)38146-8 / J. Biol. Chem. / RecA protein-facilitated DNA strand breaks. A mechanism for bypassing DNA structural barriers during strand exchange. by Bedale (1991)
  3. 10.1016/S0021-9258(18)82431-0 / J. Biol. Chem. / A reverse DNA strand exchange mediated by recA protein and exonuclease I. The generation of apparent DNA strand breaks by recA protein is explained. (1993)
  4. 10.2741/A304 / Front Biosci. / DNA strand exchange proteins: A biochemical and physical comparison. by Bianco (1998)
  5. 10.1016/S0021-9258(17)45355-5 / J. Biol. Chem. / Homologous pairing in duplex DNA regions and the formation of four-stranded paranemic joints promoted by RecA protein. Effects of gap length and negative superhelicity. by Chiu (1990)
  6. 10.1016/S0021-9258(18)69077-5 / J. Biol. Chem. / DNase protection by recA protein during strand exchange. Asymmetric protection of the Holliday structure. by Chow (1988)
  7. 10.3109/10408419409113552
  8. 10.1016/0092-8674(89)90632-6
  9. 10.1016/S0021-9258(19)38793-9 / J. Biol. Chem. / Underwinding of DNA associated with duplex-duplex pairing by RecA protein. by Conley (1990)
  10. 10.1074/jbc.270.44.26021
  11. 10.1016/S0021-9258(18)34363-1 / J. Biol. Chem. / RecA protein-promoted DNA strand exchange: Stable complexes of recA protein and single-stranded DNA formed in the presence of ATP and single-stranded DNA binding protein. by Cox (1982)
  12. 10.1021/bi00322a022
  13. 10.1002/j.1460-2075.1995.tb07233.x / EMBO J. / Escherichia coli RecG and RecA proteins in R-loop formation. by Hong (1995)
  14. 10.1101/gad.14.3.360
  15. 10.1093/nar/20.16.4347
  16. 10.1093/nar/20.16.4339
  17. 10.1016/S0092-8674(00)81229-5
  18. {'key': '2021111419192099000_14.6.740.18', 'first-page': '212', 'article-title': 'Stable DNA replication: Interplay between DNA replication, homologous recombination, and transcription.', 'volume': '61', 'year': '1997', 'journal-title': 'Microbiol. Mol. Biol. Rev.'} / Microbiol. Mol. Biol. Rev. / Stable DNA replication: Interplay between DNA replication, homologous recombination, and transcription. (1997)
  19. 10.1007/BF00334288
  20. 10.1021/bi00368a006
  21. 10.1016/0022-2836(87)90630-9
  22. 10.1073/pnas.92.8.3478
  23. 10.1128/mr.58.3.401-465.1994 / Microbiol. Rev. / Biochemistry of homologous recombination in Escherichia coli. by Kowalczykowski (1994)
  24. 10.1016/0022-2836(89)90315-X
  25. 10.1016/S0021-9258(19)38794-0 / J. Biol. Chem. / On RecA protein-mediated homologous alignment of two DNA molecules. Three strands versus four strands. (1990)
  26. 10.1073/pnas.93.20.10673
  27. 10.1093/emboj/17.4.1161
  28. 10.1101/gad.13.15.2005 / Genes & Dev. / A novel property of the RecA nucleoprotein filament: Activation of double-stranded DNA for strand exchange in trans. (1999)
  29. 10.1016/0022-2836(85)90092-0
  30. 10.1016/S0021-9258(18)61622-9 / J. Biol. Chem. / Transfer of recA protein from one polynucleotide to another: Effect of ATP and determination of the processivity of ATP hydrolysis during transfer. (1987)
  31. 10.1073/pnas.87.1.21
  32. 10.1016/0022-2836(90)90307-8
  33. 10.1016/0022-2836(90)90307-8 / J. Mol. Biol. / Characterization of the DNA binding activity of stable RecA–DNA complexes. Interaction between the two DNA binding sites within RecA helical filaments. (1990)
  34. 10.1073/pnas.81.9.2757
  35. 10.1016/S0021-9258(18)45279-9 / J. Biol. Chem. / Electron microscopic visualization of the RecA protein-mediated pairing and branch migration phases of DNA strand exchange. by Register (1987)
  36. 10.1016/S0079-6603(08)61005-3
  37. 10.1074/jbc.272.17.11063
  38. 10.1016/S1097-2765(00)80031-3
  39. 10.1016/S0021-9258(18)48070-2 / J. Biol. Chem. / The distribution of Escherichia coli recA protein bound to duplex DNA with single-stranded ends. by Shaner (1987)
  40. 10.1016/S0021-9258(19)45330-1 / J. Biol. Chem. / D-loop cycle: A circular reaction sequence which comprises formation and dissociation of D-loops and inactivation of superhelical closed DNA promoted by recA protein of Escherichia coli. by Shibata (1982)
  41. Stasiak A. Egelman E.H. (1988) Visualization of recombination reactions. in Genetic recombination, eds Kucherlapati R. Smith G.R. (American Society for Microbiology, Washington, D.C.) pp 265–308.
  42. 10.1007/BF01924002
  43. 10.1016/0092-8674(95)90434-4
  44. 10.1016/0092-8674(83)90331-8
  45. 10.1021/bi00034a019
  46. 10.1016/0092-8674(84)90401-X
  47. 10.1093/nar/26.2.650
  48. 10.1006/jmbi.1998.2580
Dates
Type When
Created 3 years, 9 months ago (Nov. 14, 2021, 10:30 p.m.)
Deposited 3 years, 9 months ago (Nov. 14, 2021, 10:31 p.m.)
Indexed 2 months, 2 weeks ago (June 18, 2025, 11:49 a.m.)
Issued 25 years, 5 months ago (March 15, 2000)
Published 25 years, 5 months ago (March 15, 2000)
Published Online 25 years, 5 months ago (March 15, 2000)
Published Print 25 years, 5 months ago (March 15, 2000)
Funders 0

None

@article{Zaitsev_2000, title={A novel pairing process promoted by Escherichia coli RecA protein: inverse DNA and RNA strand exchange}, volume={14}, ISSN={1549-5477}, url={http://dx.doi.org/10.1101/gad.14.6.740}, DOI={10.1101/gad.14.6.740}, number={6}, journal={Genes & Development}, publisher={Cold Spring Harbor Laboratory}, author={Zaitsev, Eugene N. and Kowalczykowski, Stephen C.}, year={2000}, month=mar, pages={740–749} }