Home LiteratureArticle Details
PMID: 15470496 Published · ppublish English Journal Article Research Support, Non-U.S. Gov't

Defining the position of the switches between replicative and bypass DNA polymerases.

The EMBO journal ·Vol. 23 ·No. 21 ·2004-10-27 ·Pages 4342-52

Fujii S, Fuchs RP

Abstract

Cells contain specialized DNA polymerases that are able to copy past lesions with an associated risk of generating mutations, the major cause of cancer. Here, we reconstitute translesion synthesis (TLS) using the replicative (Pol III) and major bypass (Pol V) DNA polymerases from Escherichia coli in the presence of accessory factors. When the replicative polymerase disconnects from the template in the vicinity of a lesion, Pol V binds the blocked replication intermediate and forms a stable complex by means of a dual interaction with the tip of the RecA filament and the beta-clamp, the processivity factor donated by the blocked Pol III holoenzyme. Both interactions are required to confer to Pol V the processivity that will allow it synthesize, in a single binding event, a TLS patch long enough to support further extension by Pol III. In the absence of these accessory factors, the patch synthesized by Pol V is too short, being degraded by the Pol III-associated exonuclease activity that senses the distortion induced by the lesion, thus leading to an aborted bypass process.

MeSH Terms
DNA Damage DNA Polymerase III/metabolism DNA Replication DNA, Single-Stranded/metabolism DNA-Directed DNA Polymerase/metabolism Escherichia coli/genetics,metabolism Escherichia coli Proteins/genetics,metabolism Macromolecular Substances Nucleic Acid Conformation Rec A Recombinases/metabolism
Chemicals
DNA, Single-Stranded Escherichia coli Proteins Macromolecular Substances Rec A Recombinases DNA Polymerase III DNA polymerase V, E coli DNA-Directed DNA Polymerase
Authors & Affiliations
2 authors, click to expand affiliations / ORCID
Fujii Shingo
UPR 9003 du CNRS, Cancerogenese et Mutagenese Moleculaire et Structurale, ESBS Pole API, Blvd S Brant Strasbourg, 67400 Illkirch-Graffenstaden, France.
Fuchs Robert P
References (47)
47 references, click to expand
  1. DNA replication fidelity.
    Annu Rev Biochem. 2000;69:497-529 PMID: 10966467
  2. UmuD'(2)C is an error-prone DNA polymerase, Escherichia coli pol V.
    Proc Natl Acad Sci U S A. 1999 Aug 3;96(16):8919-24 PMID: 10430871
  3. A model for SOS-lesion-targeted mutations in Escherichia coli.
    Nature. 2001 Jan 18;409(6818):366-70 PMID: 11201748
  4. Comparative gene expression profiles following UV exposure in wild-type and SOS-deficient Escherichia coli.
    Genetics. 2001 May;158(1):41-64 PMID: 11333217
  5. Mechanism of DNA polymerase II-mediated frameshift mutagenesis.
    Proc Natl Acad Sci U S A. 2001 Jul 17;98(15):8566-71 PMID: 11447256
  6. Managing DNA polymerases: coordinating DNA replication, DNA repair, and DNA recombination.
    Proc Natl Acad Sci U S A. 2001 Jul 17;98(15):8342-9 PMID: 11459973
  7. A universal protein-protein interaction motif in the eubacterial DNA replication and repair systems.
    Proc Natl Acad Sci U S A. 2001 Sep 25;98(20):11627-32 PMID: 11573000
  8. The processivity factor beta controls DNA polymerase IV traffic during spontaneous mutagenesis and translesion synthesis in vivo.
    EMBO Rep. 2002 Jan;3(1):45-9 PMID: 11751576
  9. Error-prone repair DNA polymerases in prokaryotes and eukaryotes.
    Annu Rev Biochem. 2002;71:17-50 PMID: 12045089
  10. Lesion bypass in yeast cells: Pol eta participates in a multi-DNA polymerase process.
    EMBO J. 2002 Jul 15;21(14):3881-7 PMID: 12110599
  11. Translesion DNA synthesis in eukaryotes: a one- or two-polymerase affair.
    Genes Dev. 2002 Aug 1;16(15):1872-83 PMID: 12154119
  12. How DNA lesions are turned into mutations within cells?
    Oncogene. 2002 Dec 16;21(58):8957-66 PMID: 12483512
  13. Genetics of mutagenesis in E. coli: various combinations of translesion polymerases (Pol II, IV and V) deal with lesion/sequence context diversity.
    DNA Repair (Amst). 2002 Feb 28;1(2):159-67 PMID: 12509262
  14. Pivotal role of the beta-clamp in translesion DNA synthesis and mutagenesis in E. coli cells.
    DNA Repair (Amst). 2002 Sep 4;1(9):703-8 PMID: 12509274
  15. Processive DNA synthesis observed in a polymerase crystal suggests a mechanism for the prevention of frameshift mutations.
    Proc Natl Acad Sci U S A. 2003 Apr 1;100(7):3895-900 PMID: 12649320
  16. Uncoupling of leading- and lagging-strand DNA replication during lesion bypass in vivo.
    Science. 2003 May 23;300(5623):1300-3 PMID: 12764199
  17. RecFOR proteins load RecA protein onto gapped DNA to accelerate DNA strand exchange: a universal step of recombinational repair.
    Mol Cell. 2003 May;11(5):1337-47 PMID: 12769856
  18. Chromosomal replicases as asymmetric dimers: studies of subunit arrangement and functional consequences.
    Mol Microbiol. 2003 Sep;49(5):1157-65 PMID: 12940977
  19. Competitive processivity-clamp usage by DNA polymerases during DNA replication and repair.
    EMBO J. 2003 Dec 1;22(23):6408-18 PMID: 14633999
  20. Error-prone replication for better or worse.
    Trends Microbiol. 2004 Jun;12(6):288-95 PMID: 15165607
  21. The biochemical requirements of DNA polymerase V-mediated translesion synthesis revisited.
    J Mol Biol. 2004 Aug 6;341(2):405-17 PMID: 15276832
  22. SOS repair hypothesis: phenomenology of an inducible DNA repair which is accompanied by mutagenesis.
    Basic Life Sci. 1975;5A:355-67 PMID: 1103845
  23. Hot spots of frameshift mutations induced by the ultimate carcinogen N-acetoxy-N-2-acetylaminofluorene.
    Nature. 1981 Dec 17;294(5842):657-9 PMID: 7031481
  24. Carcinogen-induced mutation spectrum in wild-type, uvrA and umuC strains of Escherichia coli. Strain specificity and mutation-prone sequences.
    J Mol Biol. 1984 Jul 25;177(1):33-51 PMID: 6379196
  25. RecA protein-dependent cleavage of UmuD protein and SOS mutagenesis.
    Proc Natl Acad Sci U S A. 1988 Mar;85(6):1806-10 PMID: 3126496
  26. UmuD mutagenesis protein of Escherichia coli: overproduction, purification, and cleavage by RecA.
    Proc Natl Acad Sci U S A. 1988 Mar;85(6):1811-5 PMID: 3279417
  27. New recA mutations that dissociate the various RecA protein activities in Escherichia coli provide evidence for an additional role for RecA protein in UV mutagenesis.
    J Bacteriol. 1989 May;171(5):2415-23 PMID: 2651400
  28. Single adduct mutagenesis: strong effect of the position of a single acetylaminofluorene adduct within a mutation hot spot.
    Proc Natl Acad Sci U S A. 1989 Jun;86(11):4147-51 PMID: 2657743
  29. Strong structural effect of the position of a single acetylaminofluorene adduct within a mutation hot spot.
    Nucleic Acids Res. 1989 Dec 11;17(23):9531-41 PMID: 2602135
  30. Acetylaminofluorene bound to different guanines of the sequence -GGCGCC- is excised with different efficiencies by the UvrABC excision nuclease in a pattern not correlated to the potency of mutation induction.
    Proc Natl Acad Sci U S A. 1990 Jan;87(1):191-4 PMID: 2296578
  31. Nature of the SOS-inducing signal in Escherichia coli. The involvement of DNA replication.
    J Mol Biol. 1990 Mar 5;212(1):79-96 PMID: 2108251
  32. A RecA protein mutant deficient in its interaction with the UmuDC complex.
    Biochimie. 1991 Apr;73(4):479-84 PMID: 1911948
  33. Carcinogen-induced frameshift mutagenesis in repetitive sequences.
    Proc Natl Acad Sci U S A. 1992 Feb 15;89(4):1310-4 PMID: 1741385
  34. Proofreading DNA: recognition of aberrant DNA termini by the Klenow fragment of DNA polymerase I.
    Proc Natl Acad Sci U S A. 1994 Oct 25;91(22):10670-4 PMID: 7938011
  35. Purification of Escherichia coli DNA polymerase III holoenzyme.
    Methods Enzymol. 1995;262:22-35 PMID: 8594350
  36. SOS factors involved in translesion synthesis.
    Proc Natl Acad Sci U S A. 1997 May 27;94(11):5733-8 PMID: 9159142
  37. New strategy for the construction of single-stranded plasmids with single mutagenic lesions.
    Chem Res Toxicol. 1997 Jun;10(6):667-71 PMID: 9208173
  38. Kinetics of DNA polymerase I (Klenow fragment exo-) activity on damaged DNA templates: effect of proximal and distal template damage on DNA synthesis.
    Biochemistry. 1997 Dec 9;36(49):15336-42 PMID: 9398262
  39. Visualizing DNA replication in a catalytically active Bacillus DNA polymerase crystal.
    Nature. 1998 Jan 15;391(6664):304-7 PMID: 9440698
  40. Thermodynamic consequences of an abasic lesion in duplex DNA are strongly dependent on base sequence.
    Biochemistry. 1998 May 19;37(20):7321-7 PMID: 9585546
  41. Thermodynamic and base-pairing studies of matched and mismatched DNA dodecamer duplexes containing cis-syn, (6-4) and Dewar photoproducts of TT.
    Nucleic Acids Res. 1998 Aug 15;26(16):3845-53 PMID: 9685504
  42. The mutagenesis protein UmuC is a DNA polymerase activated by UmuD', RecA, and SSB and is specialized for translesion replication.
    J Biol Chem. 1999 Nov 5;274(45):31763-6 PMID: 10542196
  43. Replication of damaged DNA: molecular defect in xeroderma pigmentosum variant cells.
    Mutat Res. 1999 Oct 22;435(2):111-9 PMID: 10556591
  44. Highly mutagenic replication by DNA polymerase V (UmuC) provides a mechanistic basis for SOS untargeted mutagenesis.
    Proc Natl Acad Sci U S A. 2000 Jan 18;97(2):565-70 PMID: 10639119
  45. Identification of additional genes belonging to the LexA regulon in Escherichia coli.
    Mol Microbiol. 2000 Mar;35(6):1560-72 PMID: 10760155
  46. Roles of E. coli DNA polymerases IV and V in lesion-targeted and untargeted SOS mutagenesis.
    Nature. 2000 Apr 27;404(6781):1014-8 PMID: 10801133
  47. All three SOS-inducible DNA polymerases (Pol II, Pol IV and Pol V) are involved in induced mutagenesis.
    EMBO J. 2000 Nov 15;19(22):6259-65 PMID: 11080171
Article Info
Journal
The EMBO journal
Abbr.
EMBO J
ISSN
0261-4189
Published
2004-10-27
Epub
2004-00-07
Pages
4342-52
Language
English
Region
England
NLM ID
8208664
PMCID
PMC524402
Subset
IM
Analysis Services
Analysis Services

Contact

No. 2 Wenbo Road, Zhangqiu District, Jinan, Shandong

Qilu Normal University · Genelibs Bioinformatics Lab

750 Shunhua Rd, Jinan

2F, Bldg F, University Science Park

Tel: 0531-88819269

WeChat Official Account

Follow our WeChat subscription account for real-time updates and the latest in medical and biological research.


Business Email

E-mail: product@genelibs.com