Skip Navigation

This Article
Right arrow Full Text Freely available
Right arrow Print PDF (636K) Freely available
Right arrow Alert me when this article is cited
Right arrow Alert me if a correction is posted
Services
Right arrow Email this article to a friend
Right arrow Similar articles in this journal
Right arrow Similar articles in ISI Web of Science
Right arrow Similar articles in PubMed
Right arrow Alert me to new issues of the journal
Right arrow Add to My Personal Archive
Right arrow Download to citation manager
Right arrow Search for citing articles in:
ISI Web of Science (86)
Right arrowRequest Permissions
Right arrow Commercial Re-use Guidelines
for Open Access NAR Content
Google Scholar
Right arrow Articles by Boudsocq, F.
Right arrow Articles by Woodgate, R.
Right arrow Search for Related Content
PubMed
Right arrow PubMed Citation
Right arrow Articles by Boudsocq, F.
Right arrow Articles by Woodgate, R.
Social Bookmarking
Add to CiteULike   Add to Connotea   Add to Del.icio.us  
What's this?

Nucleic Acids Research, 2001, Vol. 29, No. 22 4607-4616
© 2001 Oxford University Press

Sulfolobus solfataricus P2 DNA polymerase IV (Dpo4): an archaeal DinB-like DNA polymerase with lesion-bypass properties akin to eukaryotic pol{eta}

François Boudsocq, Shigenori Iwai1, Fumio Hanaoka2,3 and Roger Woodgate*

Section on DNA Replication, Repair and Mutagenesis, National Institute of Child Health and Human Development, National Institutes of Health, MD 20892-2725, USA, 1Biomolecular Engineering Research Institute, 6-2-3 Furuedai, Suita, Osaka 565-0874, Japan, 2Institute for Molecular and Cellular Biology, Osaka University, and CREST, Japan Science and Technology Corporation, 1-3 Yamada-oka, Suita, Osaka 565-0871, Japan and 3RIKEN (The Institute of Physical and Chemical Research), Wako-shi, Saitama 351-0198, Japan

Phylogenetic analysis of Y-family DNA polymerases suggests that it can be subdivided into several discrete branches consisting of UmuC/DinB/Rev1/Rad30/Rad30A and Rad30B. The most diverse is the DinB family that is found in all three kingdoms of life. Searches of the complete genome of the crenarchaeon Sulfolobus solfataricus P2 reveal that it possesses a DinB homolog that has been termed DNA polymerase IV (Dpo4). We have overproduced and purified native Dpo4 protein and report here its enzymatic characterization. Dpo4 is thermostable, but can also synthesize DNA at 37°C. Under these conditions, the enzyme exhibits misinsertion fidelities in the range of 8 x 10–3 to 3 x 10–4. Dpo4 is distributive but at high enzyme to template ratios can synthesize long stretches of DNA and can substitute for Taq polymerase in PCR. On damaged DNA templates, Dpo4 can facilitate translesion replication of an abasic site, a cis-syn thymine–thymine dimer, as well as acetyl aminofluorene adducted- and cisplatinated-guanine residues. Thus, although phylogenetically related to DinB polymerases, our studies suggest that the archaeal Dpo4 enzyme exhibits lesion-bypass properties that are, in fact, more akin to those of eukaryotic pol{eta}.

* To whom correspondence should be addressed. Tel: +1 301 496 6175; Fax: +1 301 594 1135; Email: woodgate{at}helix.nih.gov Present address: Shigenori Iwai, Graduate School of Engineering, University of Tokyo, Japan


Add to CiteULike CiteULike   Add to Connotea Connotea   Add to Del.icio.us Del.icio.us    What's this?


This article has been cited by other articles:


Home page
 J. Biol. Chem.Home page
A. Irimia, R. L. Eoff, F. P. Guengerich, and M. Egli
Structural and Functional Elucidation of the Mechanism Promoting Error-prone Synthesis by Human DNA Polymerase {kappa} Opposite the 7,8-Dihydro-8-oxo-2'-deoxyguanosine Adduct
J. Biol. Chem., August 14, 2009; 284(33): 22467 - 22480.
[Abstract] [Full Text] [PDF]

Home page
 Nucleic Acids ResHome page
A. Valenti, G. Perugino, T. Nohmi, M. Rossi, and M. Ciaramella
Inhibition of translesion DNA polymerase by archaeal reverse gyrase
Nucleic Acids Res., July 1, 2009; 37(13): 4287 - 4295.
[Abstract] [Full Text] [PDF]

Home page
 J. Biol. Chem.Home page
S. M. Sherrer, J. A. Brown, L. R. Pack, V. P. Jasti, J. D. Fowler, A. K. Basu, and Z. Suo
Mechanistic Studies of the Bypass of a Bulky Single-base Lesion Catalyzed by a Y-family DNA Polymerase
J. Biol. Chem., March 6, 2009; 284(10): 6379 - 6388.
[Abstract] [Full Text] [PDF]

Home page
 J. Biol. Chem.Home page
H. Zhang, R. L. Eoff, I. D. Kozekov, C. J. Rizzo, M. Egli, and F. P. Guengerich
Versatility of Y-family Sulfolobus solfataricus DNA Polymerase Dpo4 in Translesion Synthesis Past Bulky N2-Alkylguanine Adducts
J. Biol. Chem., February 6, 2009; 284(6): 3563 - 3576.
[Abstract] [Full Text] [PDF]

Home page
 Proc. Natl. Acad. Sci. USAHome page
I. K. O. Cann
Cell sorting protein homologs reveal an unusual diversity in archaeal cell division
PNAS, December 2, 2008; 105(48): 18653 - 18654.
[Full Text] [PDF]

Home page
 Nucleic Acids ResHome page
J. A. Brown, S. A. Newmister, K. A. Fiala, and Z. Suo
Mechanism of double-base lesion bypass catalyzed by a Y-family DNA polymerase
Nucleic Acids Res., July 1, 2008; 36(12): 3867 - 3878.
[Abstract] [Full Text] [PDF]

Home page
 Nucleic Acids ResHome page
K. A. Fiala, S. M. Sherrer, J. A. Brown, and Z. Suo
Mechanistic consequences of temperature on DNA polymerization catalyzed by a Y-family DNA polymerase
Nucleic Acids Res., April 1, 2008; 36(6): 1990 - 2001.
[Abstract] [Full Text] [PDF]

Home page
 Nucleic Acids ResHome page
J. Chen, F.-Y. Dupradeau, D. A. Case, C. J. Turner, and J. Stubbe
DNA oligonucleotides with A, T, G or C opposite an abasic site: structure and dynamics
Nucleic Acids Res., January 17, 2008; 36(1): 253 - 262.
[Abstract] [Full Text] [PDF]

Home page
 J. Biol. Chem.Home page
A. Irimia, R. L. Eoff, P. S. Pallan, F. P. Guengerich, and M. Egli
Structure and Activity of Y-class DNA Polymerase DPO4 from Sulfolobus solfataricus with Templates Containing the Hydrophobic Thymine Analog 2,4-Difluorotoluene
J. Biol. Chem., December 14, 2007; 282(50): 36421 - 36433.
[Abstract] [Full Text] [PDF]

Home page
 Proc. Natl. Acad. Sci. USAHome page
J. Bauer, G. Xing, H. Yagi, J. M. Sayer, D. M. Jerina, and H. Ling
A structural gap in Dpo4 supports mutagenic bypass of a major benzo[a]pyrene dG adduct in DNA through template misalignment
PNAS, September 18, 2007; 104(38): 14905 - 14910.
[Abstract] [Full Text] [PDF]

Home page
 Nucleic Acids ResHome page
J.-P. Capp, F. Boudsocq, A.-G. Besnard, B. S. Lopez, C. Cazaux, J.-S. Hoffmann, and Y. Canitrot
Involvement of DNA polymerase {micro} in the repair of a specific subset of DNA double-strand breaks in mammalian cells
Nucleic Acids Res., June 28, 2007; 35(11): 3551 - 3560.
[Abstract] [Full Text] [PDF]

Home page
 J. Biol. Chem.Home page
K. A. Fiala, C. D. Hypes, and Z. Suo
Mechanism of Abasic Lesion Bypass Catalyzed by a Y-family DNA Polymerase
J. Biol. Chem., March 16, 2007; 282(11): 8188 - 8198.
[Abstract] [Full Text] [PDF]

Home page
 J. Biol. Chem.Home page
K. A. Fiala and Z. Suo
Sloppy Bypass of an Abasic Lesion Catalyzed by a Y-family DNA Polymerase
J. Biol. Chem., March 16, 2007; 282(11): 8199 - 8206.
[Abstract] [Full Text] [PDF]

Home page
 J. Biol. Chem.Home page
R. A. Perlow-Poehnelt, I. Likhterov, L. Wang, D. A. Scicchitano, N. E. Geacintov, and S. Broyde
Increased Flexibility Enhances Misincorporation: TEMPERATURE EFFECTS ON NUCLEOTIDE INCORPORATION OPPOSITE A BULKY CARCINOGEN-DNA ADDUCT BY A Y-FAMILY DNA POLYMERASE
J. Biol. Chem., January 12, 2007; 282(2): 1397 - 1408.
[Abstract] [Full Text] [PDF]

Home page
 Nucleic Acids ResHome page
L. Zhang, O. Rechkoblit, L. Wang, D. J. Patel, R. Shapiro, and S. Broyde
Mutagenic nucleotide incorporation and hindered translocation by a food carcinogen C8-dG adduct in Sulfolobus solfataricus P2 DNA polymerase IV (Dpo4): modeling and dynamics studies
Nucleic Acids Res., July 4, 2006; 34(11): 3326 - 3337.
[Abstract] [Full Text] [PDF]

Home page
 Protein Eng Des SelHome page
K. Kashiwagi, Y. Isogai, K.-I. Nishiguchi, and K. Shiba
Frame shuffling: a novel method for in vitro protein evolution
Protein Eng. Des. Sel., March 1, 2006; 19(3): 135 - 140.
[Abstract] [Full Text] [PDF]

Home page
 Nucleic Acids ResHome page
J. P. McDonald, A. Hall, D. Gasparutto, J. Cadet, J. Ballantyne, and R. Woodgate
Novel thermostable Y-family polymerases: applications for the PCR amplification of damaged or ancient DNAs
Nucleic Acids Res., February 18, 2006; 34(4): 1102 - 1111.
[Abstract] [Full Text] [PDF]

Home page
 Nucleic Acids ResHome page
L. Wang and S. Broyde
A new anti conformation for N-(deoxyguanosin-8-yl)-2-acetylaminofluorene (AAF-dG) allows Watson-Crick pairing in the Sulfolobus solfataricus P2 DNA polymerase IV (Dpo4)
Nucleic Acids Res., February 1, 2006; 34(3): 785 - 795.
[Abstract] [Full Text] [PDF]

Home page
 GENES CELLSHome page
R. Fujikane, H. Shinagawa, and Y. Ishino
The archaeal Hjm helicase has recQ-like functions, and may be involved in repair of stalled replication fork
Genes Cells, February 1, 2006; 11(2): 99 - 110.
[Abstract] [Full Text] [PDF]

Home page
 Nucleic Acids ResHome page
M. Hogg, W. Cooper, L. Reha-Krantz, and S. S. Wallace
Kinetics of error generation in homologous B-family DNA polymerases.
Nucleic Acids Res., January 1, 2006; 34(9): 2528 - 2535.
[Abstract] [Full Text] [PDF]

Home page
 Proc. Natl. Acad. Sci. USAHome page
R. E. Johnson, L. Prakash, and S. Prakash
Distinct mechanisms of cis-syn thymine dimer bypass by Dpo4 and DNA polymerase {eta}
PNAS, August 30, 2005; 102(35): 12359 - 12364.
[Abstract] [Full Text] [PDF]

Home page
 J. Biol. Chem.Home page
H. Zang, A. K. Goodenough, J.-Y. Choi, A. Irimia, L. V. Loukachevitch, I. D. Kozekov, K. C. Angel, C. J. Rizzo, M. Egli, and F. P. Guengerich
DNA Adduct Bypass Polymerization by Sulfolobus solfataricus DNA Polymerase Dpo4: ANALYSIS AND CRYSTAL STRUCTURES OF MULTIPLE BASE PAIR SUBSTITUTION AND FRAMESHIFT PRODUCTS WITH THE ADDUCT 1,N2-ETHENOGUANINE
J. Biol. Chem., August 19, 2005; 280(33): 29750 - 29764.
[Abstract] [Full Text] [PDF]

Home page
 Nucleic Acids ResHome page
C. P. Guy, A. I. Majernik, J. P. J. Chong, and E. L. Bolt
A novel nuclease-ATPase (Nar71) from archaea is part of a proposed thermophilic DNA repair system
Nucleic Acids Res., November 29, 2004; 32(21): 6176 - 6186.
[Abstract] [Full Text] [PDF]

Home page
 J. Biol. Chem.Home page
G. W. Hsu, J. R. Kiefer, D. Burnouf, O. J. Becherel, R. P. P. Fuchs, and L. S. Beese
Observing Translesion Synthesis of an Aromatic Amine DNA Adduct by a High-fidelity DNA Polymerase
J. Biol. Chem., November 26, 2004; 279(48): 50280 - 50285.
[Abstract] [Full Text] [PDF]

Home page
 J. Biol. Chem.Home page
R. A. Perlow-Poehnelt, I. Likhterov, D. A. Scicchitano, N. E. Geacintov, and S. Broyde
The Spacious Active Site of a Y-Family DNA Polymerase Facilitates Promiscuous Nucleotide Incorporation Opposite a Bulky Carcinogen-DNA Adduct: ELUCIDATING THE STRUCTURE-FUNCTION RELATIONSHIP THROUGH EXPERIMENTAL AND COMPUTATIONAL APPROACHES
J. Biol. Chem., August 27, 2004; 279(35): 36951 - 36961.
[Abstract] [Full Text] [PDF]

Home page
 J. Biol. Chem.Home page
F. Boudsocq, R. J. Kokoska, B. S. Plosky, A. Vaisman, H. Ling, T. A. Kunkel, W. Yang, and R. Woodgate
Investigating the Role of the Little Finger Domain of Y-family DNA Polymerases in Low Fidelity Synthesis and Translesion Replication
J. Biol. Chem., July 30, 2004; 279(31): 32932 - 32940.
[Abstract] [Full Text] [PDF]

Home page
 J. Biol. Chem.Home page
R. J. Kokoska, S. D. McCulloch, and T. A. Kunkel
The Efficiency and Specificity of Apurinic/Apyrimidinic Site Bypass by Human DNA Polymerase {eta} and Sulfolobus solfataricus Dpo4
J. Biol. Chem., December 12, 2003; 278(50): 50537 - 50545.
[Abstract] [Full Text] [PDF]

Home page
 Nucleic Acids ResHome page
P. Gruz, M. Shimizu, F. M. Pisani, M. D. Felice, Y. Kanke, and T. Nohmi
Processing of DNA lesions by archaeal DNA polymerases from Sulfolobus solfataricus
Nucleic Acids Res., July 15, 2003; 31(14): 4024 - 4030.
[Abstract] [Full Text] [PDF]

Home page
 Genes Dev.Home page
S. Prakash and L. Prakash
Translesion DNA synthesis in eukaryotes: A one- or two-polymerase affair
Genes & Dev., August 1, 2002; 16(15): 1872 - 1883.
[Full Text] [PDF]

Home page
 J. Biol. Chem.Home page
O. Potapova, N. D. F. Grindley, and C. M. Joyce
The Mutational Specificity of the Dbh Lesion Bypass Polymerase and Its Implications
J. Biol. Chem., July 26, 2002; 277(31): 28157 - 28166.
[Abstract] [Full Text] [PDF]

Home page
 J. Biol. Chem.Home page
R. J. Kokoska, K. Bebenek, F. Boudsocq, R. Woodgate, and T. A. Kunkel
Low Fidelity DNA Synthesis by a Y Family DNA Polymerase Due to Misalignment in the Active Site
J. Biol. Chem., May 24, 2002; 277(22): 19633 - 19638.
[Abstract] [Full Text] [PDF]


Disclaimer: Please note that abstracts for content published before 1996 were created through digital scanning and may therefore not exactly replicate the text of the original print issues. All efforts have been made to ensure accuracy, but the Publisher will not be held responsible for any remaining inaccuracies. If you require any further clarification, please contact our Customer Services Department.