Efficient second strand cleavage during holliday junction resolution by RuvC requires both increased junction flexibility and an exposed 5′ phosphate

PLoS ONE

Volumn 4, Issue 4, 2009, Pages

  Osman, Fekret ^a   Gaskell, Louise ^a   Whitby, Matthew C ^a  

^a UNIVERSITY OF OXFORD   (United Kingdom)

Author keywords

[No Author keywords available]

Indexed keywords

DNA; EME1 PROTEIN; ENDONUCLEASE; ESCHERICHIA COLI PROTEIN; MUS81 PROTEIN; PHOSPHATE; RUVC PROTEIN; UNCLASSIFIED DRUG; BACTERIAL DNA; CROSSOVER JUNCTION ENDODEOXYRIBONUCLEASE; CRUCIFORM DNA; DEOXYRIBONUCLEASE; DNA BINDING PROTEIN; EME1PROTEIN, S POMBE; FUNGAL DNA; MUS81 PROTEIN, S POMBE; RUVC PROTEIN, E COLI; SCHIZOSACCHAROMYCES POMBE PROTEIN;

ARTICLE; CONTROLLED STUDY; DNA CLEAVAGE; DNA SEQUENCE; DNA STRAND; ESCHERICHIA COLI; HOLLIDAY JUNCTION; HOMOLOGOUS RECOMBINATION; NONHUMAN; SCHIZOSACCHAROMYCES POMBE; BINDING SITE; CHEMISTRY; DIMERIZATION; GENETIC RECOMBINATION; GENETICS; KINETICS; METABOLISM; MOLECULAR GENETICS; NUCLEOTIDE SEQUENCE; SCHIZOSACCHAROMYCES;

ESCHERICHIA COLI; SCHIZOSACCHAROMYCES POMBE;

BASE SEQUENCE; BINDING SITES; DIMERIZATION; DNA, BACTERIAL; DNA, CRUCIFORM; DNA, FUNGAL; DNA-BINDING PROTEINS; ENDODEOXYRIBONUCLEASES; ENDONUCLEASES; ESCHERICHIA COLI; ESCHERICHIA COLI PROTEINS; HOLLIDAY JUNCTION RESOLVASES; KINETICS; MOLECULAR SEQUENCE DATA; PHOSPHATES; RECOMBINATION, GENETIC; SCHIZOSACCHAROMYCES; SCHIZOSACCHAROMYCES POMBE PROTEINS;

EID: 65449190133     PISSN: None     EISSN: 19326203     Source Type: Journal    
DOI: 10.1371/journal.pone.0005347     Document Type: Article

References (26)

1. Lilley DM, White MF (2001) The junction-resolving enzymes. Nat Rev Mol Cell Biol 2: 433-443.
2. Sharples GJ (2001) The X philes: structure-specific endonucleases that resolve Holliday junctions. Mol Microbiol 39: 823-834.
3. Declais AC, Lilley DM (2008) New insight into the recognition of branched DNA structure by junction-resolving enzymes. Curr Opin Struct Biol 18: 86-95.
4. Shah R, Bennett RJ, West SC (1994) Genetic recombination in E. coli: RuvC protein cleaves Holliday junctions at resolution hotspots in vitro. Cell 79: 853-864.
5. Shah R, Cosstick R, West SC (1997) The RuvC protein dimer resolves Holliday junctions by a dual incision mechanism that involves base-specific contacts. Embo J 16: 1464-1472.
6. Fogg JM, Lilley DM (2000) Ensuring productive resolution by the junction-resolving enzyme RuvC: large enhancement of the second-strand cleavage rate. Biochemistry 39: 16125-16134.
7. Boddy MN, Gaillard P-HL, McDonald WH, Shanahan P, Yates 3rd JR, et al. (2001) Mus81-Eme1 are essential components of a Holliday junction resolvase. Cell 107: 537-548.
8. Ogrunc M, Sancar A (2003) Identification and characterization of human MUS81-MMS4 structure-specific endonuclease. J Biol Chem 278: 21715-21720.
9. Ciccia A, Constantinou A, West SC (2003) Identification and characterization of the human Mus81-Eme1 endonuclease. J Biol Chem 278: 25172-25178.
10. Mullen JR, Kaliraman V, Ibrahim SS, Brill SJ (2001) Requirement for Three Novel Protein Complexes in the Absence of the Sgs1 DNA Helicase in Saccharomyces cerevisiae. Genetics 157: 103-118.
11. Kaliraman V, Mullen JR, Fricke WM, Bastin-Shanower SA, Brill SJ (2001) Functional overlap between Sgs1-Top3 and the Mms4-Mus81 endonuclease. Genes Dev 15: 2730-2740.
12. Hollingsworth NM, Brill SJ (2004) The Mus81 solution to resolution: generating meiotic crossovers without Holliday junctions. Genes Dev 18: 117-125.
13. Osman F, Whitby MC (2007) Exploring the roles of Mus81-Eme1/Mms4 at perturbed replication forks. DNA Repair 6: 1004-1017.
14. Gaillard PH, Noguchi E, Shanahan P, Russell P (2003) The endogenous Mus81-Eme1 complex resolves Holliday junctions by a nick and counternick mechanism. Mol Cell 12: 747-759.
15. Gaskell LJ, Osman F, Gilbert RJ, Whitby MC (2007) Mus81 cleavage of Holliday junctions: a failsafe for processing meiotic recombination intermediates? Embo J 26: 1891-1901.
16. Taylor ER, McGowan CH (2008) Cleavage mechanism of human Mus81-Eme1 acting on Holliday-junction structures. Proc Natl Acad Sci U S A 105: 3757-3762.
17. Osman F, Dixon J, Doe CL, Whitby MC (2003) Generating crossovers by resolution of nicked Holliday junctions: a role for Mus81-Eme1 in meiosis. Mol Cell 12: 761-774.
18. Chang JH, Kim JJ, Choi JM, Lee JH, Cho Y (2008) Crystal structure of the Mus81-Eme1 complex. Genes Dev 22: 1093-1106.
19. Sha R, Iwasaki H, Liu F, Shinagawa H, Seeman NC (2000) Cleavage of symmetric immobile DNA junctions by Escherichia coli RuvC. Biochemistry 39: 11982-11988.
20. Bastin-Shanower SA, Fricke WM, Mullen JR, Brill SJ (2003) The mechanism of Mus81-Mms4 cleavage site selection distinguishes it from the homologous endonuclease Rad1-Rad10. Mol Cell Biol 23: 3487-3496.
21. Liu J, Declais AC, Lilley DM (2004) Electrostatic interactions and the folding of the four-way DNA junction: analysis by selective methyl phosphonate substitution. J Mol Biol 343: 851-864.
22. Klenchin VA, Czyz A, Goryshin IY, Gradman R, Lovell S, et al. (2008) Phosphate coordination and movement of DNA in the Tn5 synaptic complex: role of the (R)YREK motif. Nucleic Acids Res 36: 5855-5862.
23. Ceschini S, Keeley A, McAlister MS, Oram M, Phelan J, et al. (2001) Crystal structure of the fission yeast mitochondrial Holliday junction resolvase Ydc2. Embo J 20: 6601-6611.
24. Dunderdale HJ, Sharples GJ, Lloyd RG, West SC (1994) Cloning, overexpression, purification, and characterization of the Escherichia coli RuvC Holliday junction resolvase. J Biol Chem 269: 5187-5194.
25. Whitby MC, Dixon J (1998) Substrate specificity of the SpCCE1 Holliday junction resolvase of Schizosaccharomyces pombe. J Biol Chem 273: 35063-35073.
26. Parsons CA, Kemper B, West SC (1990) Interaction of a four-way junction in DNA with T4 endonuclease VII. J Biol Chem 265: 9285-9289.