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Converting a DNA damage checkpoint effector (UmuD2C) into a lesion bypass polymerase (UmuD'2C).

Ferentz AE, Walker GC, Wagner G
EMBO J 20 4287-98 (2001)
Cited: 28 times
EuropePMC logo PMID: 11483531

Abstract

During the SOS response of Escherichia coli to DNA damage, the umuDC operon is induced, producing the trimeric protein complexes UmuD2C, a DNA damage checkpoint effector, and UmuD'2C (DNA polymerase V), which carries out translesion synthesis, the basis of 'SOS mutagenesis'. UmuD'2, the homodimeric component of DNA pol V, is produced from UmuD by RecA-facilitated self-cleavage, which removes the 24 N-terminal residues of UmuD. We report the solution structure of UmuD'2 (PDB ID 1I4V) and interactions within UmuD'-UmuD, a heterodimer inactive in translesion synthesis. The overall shape of UmuD'2 in solution differs substantially from the previously reported crystal structure, even though the topologies of the two structures are quite similar. Most significantly, the active site residues S60 and K97 do not point directly at one another in solution as they do in the crystal, suggesting that self-cleavage of UmuD might require RecA to assemble the active site. Structural differences between UmuD'2 and UmuD'- UmuD suggest that UmuD'2C and UmuD2C might achieve their different biological activities through distinct interactions with RecA and DNA pol III.

Articles - 1i4v mentioned but not cited (5)

  1. Sequence co-evolution gives 3D contacts and structures of protein complexes. Hopf TA, Schärfe CP, Rodrigues JP, Green AG, Kohlbacher O, Sander C, Bonvin AM, Marks DS. Elife 3 (2014)
  2. Converting a DNA damage checkpoint effector (UmuD2C) into a lesion bypass polymerase (UmuD'2C). Ferentz AE, Walker GC, Wagner G. EMBO J 20 4287-4298 (2001)
  3. Conformational dynamics of the Escherichia coli DNA polymerase manager proteins UmuD and UmuD'. Fang J, Rand KD, Silva MC, Wales TE, Engen JR, Beuning PJ. J Mol Biol 398 40-53 (2010)
  4. The dimeric SOS mutagenesis protein UmuD is active as a monomer. Ollivierre JN, Sikora JL, Beuning PJ. J Biol Chem 286 3607-3617 (2011)
  5. Translesion DNA Synthesis. Vaisman A, McDonald JP, Woodgate R. EcoSal Plus 5 (2012)


Reviews citing this publication (6)

  1. Y-family DNA polymerases in Escherichia coli. Jarosz DF, Beuning PJ, Cohen SE, Walker GC. Trends Microbiol 15 70-77 (2007)
  2. Coordinating DNA polymerase traffic during high and low fidelity synthesis. Sutton MD. Biochim Biophys Acta 1804 1167-1179 (2010)
  3. A tale of two polymers: new insights into helical filaments. Egelman EH. Nat Rev Mol Cell Biol 4 621-630 (2003)
  4. Recombinational DNA repair: the ignored repair systems. Smith KC. Bioessays 26 1322-1326 (2004)
  5. The "tale" of UmuD and its role in SOS mutagenesis. Gonzalez M, Woodgate R. Bioessays 24 141-148 (2002)
  6. Recombination Mediator Proteins: Misnomers That Are Key to Understanding the Genomic Instabilities in Cancer. Courcelle J, Worley TK, Courcelle CT. Genes (Basel) 13 437 (2022)

Articles citing this publication (17)

  1. After 30 years of study, the bacterial SOS response still surprises us. Michel B. PLoS Biol 3 e255 (2005)
  2. Distinct peptide signals in the UmuD and UmuD' subunits of UmuD/D' mediate tethering and substrate processing by the ClpXP protease. Neher SB, Sauer RT, Baker TA. Proc Natl Acad Sci U S A 100 13219-13224 (2003)
  3. Regulation of Escherichia coli SOS mutagenesis by dimeric intrinsically disordered umuD gene products. Simon SM, Sousa FJ, Mohana-Borges R, Walker GC. Proc Natl Acad Sci U S A 105 1152-1157 (2008)
  4. Posttranslational modification of the umuD-encoded subunit of Escherichia coli DNA polymerase V regulates its interactions with the beta processivity clamp. Sutton MD, Narumi I, Walker GC. Proc Natl Acad Sci U S A 99 5307-5312 (2002)
  5. DNA mismatch repair and acquired cisplatin resistance in E. coli and human ovarian carcinoma cells. Massey A, Offman J, Macpherson P, Karran P. DNA Repair (Amst) 2 73-89 (2003)
  6. Answering the Call: Coping with DNA Damage at the Most Inopportune Time. Crowley DJ, Courcelle J. J Biomed Biotechnol 2 66-74 (2002)
  7. Translesion DNA polymerases are required for spontaneous deletion formation in Salmonella typhimurium. Koskiniemi S, Andersson DI. Proc Natl Acad Sci U S A 106 10248-10253 (2009)
  8. Protein β-interfaces as a generic source of native peptide tectons. Valéry C, Pandey R, Gerrard JA. Chem Commun (Camb) 49 2825-2827 (2013)
  9. Survival and SOS induction in cisplatin-treated Escherichia coli deficient in Pol II, RecBCD and RecFOR functions. Bhattacharya R, Beck DJ. DNA Repair (Amst) 1 955-966 (2002)
  10. Crystal structure of a viral protease intramolecular acyl-enzyme complex: insights into cis-cleavage at the VP4/VP3 junction of Tellina birnavirus. Chung IY, Paetzel M. J Biol Chem 286 12475-12482 (2011)
  11. The Roles of UmuD in Regulating Mutagenesis. Ollivierre JN, Fang J, Beuning PJ. J Nucleic Acids 2010 947680 (2010)
  12. Altered translesion synthesis in E. coli Pol V mutants selected for increased recombination inhibition. Sommer S, Becherel OJ, Coste G, Bailone A, Fuchs RP. DNA Repair (Amst) 2 1361-1369 (2003)
  13. Structural model of the Y-Family DNA polymerase V/RecA mutasome. Chandani S, Loechler EL. J Mol Graph Model 39 133-144 (2013)
  14. To cleave or not to cleave? Insights from the LexA crystal structure. Walker GC. Mol Cell 8 486-487 (2001)
  15. The bacteriophage 434 repressor dimer preferentially undergoes autoproteolysis by an intramolecular mechanism. McCabe BC, Pawlowski DR, Koudelka GB. J Bacteriol 187 5624-5630 (2005)
  16. Electron spin labeling reveals the highly dynamic N-terminal arms of the SOS mutagenesis protein UmuD. Ollivierre JN, Budil DE, Beuning PJ. Mol Biosyst 7 3183-3186 (2011)
  17. Altering the N-terminal arms of the polymerase manager protein UmuD modulates protein interactions. Murison DA, Ollivierre JN, Huang Q, Budil DE, Beuning PJ. PLoS One 12 e0173388 (2017)


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