Functions of DNA Polymerases

Molecular Structure of Nucleic Acids: A Structure for Deoxyribose Nucleic Acid

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DNA Repair and Mutagenesis

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DNA repair and mutagenesis

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RAD6-dependent DNA repair is linked to modification of PCNA by ubiquitin and SUMO

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Quality Control by DNA Repair

Lindahl, T. L., & Wood, R. D. (1999) · Science · doi:10.1126/science.286.5446.1897 · Cited by 1,521

Deletion of a DNA Polymerase β Gene Segment in T Cells Using Cell Type-Specific Gene Targeting

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The Y-Family of DNA Polymerases

Ohmori, H., Friedberg, E. C., Fuchs, R. P., Goodman, M. F., Hanaoka, F., Hinkle, D. C., Kunkel, T. A., Lawrence, C. W., Livneh, Z., Nohmi, T., et al. (2001) · Molecular Cell · doi:10.1016/s1097-2765(01)00278-7 · Cited by 882

Structure of large fragment of Escherichia coli DNA polymerase I complexed with dTMP

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V(D)J Recombination: RAG Proteins, Repair Factors, and Regulation

Gellert, M. F. (2002) · Annual Review of Biochemistry · doi:10.1146/annurev.biochem.71.090501.150203 · Cited by 771

DNA Replication Fidelity

Kunkel, T. A. (2004) · Journal of Biological Chemistry · doi:10.1074/jbc.r400006200 · Cited by 754

Error-Prone Repair DNA Polymerases in Prokaryotes and Eukaryotes

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Eukaryotic DNA Polymerases

Hübscher, U., Maga, G., & Spadari, S. (2002) · Annual Review of Biochemistry · doi:10.1146/annurev.biochem.71.090501.150041 · Cited by 691

A Mutator Phenotype in Cancer 1

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Crystal Structure of a Y-Family DNA Polymerase in Action

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XRCC1 and DNA strand break repair

Caldecott, K. W. (2003) · DNA repair · doi:10.1016/s1568-7864(03)00118-6 · Cited by 609

DNA end-joining: from yeast to man

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Pre-B-cell colony-enhancing factor, whose expression is up-regulated in activated lymphocytes, is a nicotinamide phosphoribosyltransferase, a cytosolic enzyme involved in NAD biosynthesis

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The spindle checkpoint: structural insights into dynamic signalling

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Mice Lacking TdT: Mature Animals with an Immature Lymphocyte Repertoire

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Nucleotide excision repair in Escherichia coli

Houten, B. V. (1990) · Microbiological Reviews · doi:10.1128/mr.54.1.18-51.1990 · Cited by 443

DNA POLYMERASE III HOLOENZYME: Structure and Function of a Chromosomal Replicating Machine

Kelman, Z., & O’Donnell, M. E. (1995) · Annual Review of Biochemistry · doi:10.1146/annurev.bi.64.070195.001131 · Cited by 430

DNA Polymerase γ, The Mitochondrial Replicase

Kaguni, L. S. (2004) · Annual Review of Biochemistry · doi:10.1146/annurev.biochem.72.121801.161455 · Cited by 414

DNA polymerase ϵ links the DNA replication machinery to the S phase checkpoint

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Low fidelity DNA synthesis by human DNA polymerase-η

Matsuda, T., Bebenek, K., Masutani, C., Hanaoka, F., & Kunkel, T. A. (2000) · Nature · doi:10.1038/35010014 · Cited by 372

Mouse Rev1 protein interacts with multiple DNA polymerases involved in translesion DNA synthesis

Guo, C., Fischhaber, P. L., Luk‐Paszyc, M. J., Masuda, Y., Zhou, J., Kamiya, K., Kisker, C., & Friedberg, E. C. (2003) · The EMBO Journal · doi:10.1093/emboj/cdg626 · Cited by 353

Structure of the Catalytic Core of S. cerevisiae DNA Polymerase η

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Association of DNA Polymerase μ (pol μ) with Ku and Ligase IV: Role for pol μ in End-Joining Double-Strand Break Repair

Mahajan, K. N., Nick McElhinny, S. A., Mitchell, B. S., & Ramsden, D. A. (2002) · Molecular and Cellular Biology · doi:10.1128/mcb.22.14.5194-5202.2002 · Cited by 293

A Unified Polymerase Mechanism for Nonhomologous DNA and RNA Polymerases

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DNA Polymerase ε Catalytic Domains Are Dispensable for DNA Replication, DNA Repair, and Cell Viability

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DNA polymerase lambda (Pol λ), a novel eukaryotic DNA polymerase with a potential role in meiosis 1 1Edited by M. Yaniv

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DNA polymerase mu (Pol μ), homologous to TdT, could act as a DNA mutator in eukaryotic cells

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DNA excision repair pathways

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Double-Strand Break Repair in Yeast Requires Both Leading and Lagging Strand DNA Polymerases

Holmes, A. M., & Haber, J. E. (1999) · Cell · doi:10.1016/s0092-8674(00)80554-1 · Cited by 258

New insights into V(D)J recombination and its role in the evolution of the immune system

Thompson, C. B. (1995) · Immunity · doi:10.1016/1074-7613(95)90124-8 · Cited by 257

Preferential cis–syn thymine dimer bypass by DNA polymerase η occurs with biased fidelity

McCulloch, S. D., Kokoska, R. J., Masutani, C., Iwai, S., Hanaoka, F., & Kunkel, T. A. (2004) · Nature · doi:10.1038/nature02352 · Cited by 246

Immunity through DNA deamination

Neuberger, M. S., Harris, R. S., Noia, J. M. D., & Petersen‐Mahrt, S. K. (2003) · Trends in Biochemical Sciences · doi:10.1016/s0968-0004(03)00111-7 · Cited by 241

How DNA lesions are turned into mutations within cells?

Pagès, V., & Fuchs, R. P. (2002) · Oncogene · doi:10.1038/sj.onc.1206006 · Cited by 237

Identification of an Intrinsic 5′-Deoxyribose-5-phosphate Lyase Activity in Human DNA Polymerase λ

García–Díaz, M., Bębenek, K., Kunkel, T. A., & Blanco, L. (2001) · Journal of Biological Chemistry · doi:10.1074/jbc.m106336200 · Cited by 234

DNA Polymerase δ Is Required for Human Mismatch Repair in Vitro

Longley, M. J., Pierce, A. J., & Modrich, P. L. (1997) · Journal of Biological Chemistry · doi:10.1074/jbc.272.16.10917 · Cited by 230

Identification of 5′-deoxyribose phosphate lyase activity in human DNA polymerase γ and its role in mitochondrial base excision repair in vitro

Longley, M. J., Prasad, R., Srivastava, D., Wilson, S. H., & Copeland, W. C. (1998) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.95.21.12244 · Cited by 228

The Mitochondrial p55 Accessory Subunit of Human DNA Polymerase γ Enhances DNA Binding, Promotes Processive DNA Synthesis, and Confers N-Ethylmaleimide Resistance

Lim, S. E., Longley, M. J., & Copeland, W. C. (1999) · Journal of Biological Chemistry · doi:10.1074/jbc.274.53.38197 · Cited by 226

Replication of a cis–syn thymine dimer at atomic resolution

Ling, H., Boudsocq, F., Plosky, B. S., Woodgate, R., & Yang, W. (2003) · Nature · doi:10.1038/nature01919 · Cited by 216

Efficient Processing of DNA Ends during Yeast Nonhomologous End Joining

Wilson, T. E., & Lieber, M. R. (1999) · Journal of Biological Chemistry · doi:10.1074/jbc.274.33.23599 · Cited by 214

POLQ (Pol ), a DNA polymerase and DNA-dependent ATPase in human cells

Seki, M. (2003) · Nucleic Acids Research · doi:10.1093/nar/gkg814 · Cited by 213

Implication of DNA Polymerase λ in Alignment-based Gap Filling for Nonhomologous DNA End Joining in Human Nuclear Extracts

Lee, J. W., Blanco, L., Zhou, T., García–Díaz, M., Bębenek, K., Kunkel, T. A., Wang, Z., & Povirk, L. F. (2003) · Journal of Biological Chemistry · doi:10.1074/jbc.m307913200 · Cited by 212

Analysis of the Essential Functions of the C-terminal Protein/Protein Interaction Domain of Saccharomyces cerevisiae pol ε and Its Unexpected Ability to Support Growth in the Absence of the DNA Polymerase Domain

Dua, R., Levy, D. L., & Campbell, J. L. (1999) · Journal of Biological Chemistry · doi:10.1074/jbc.274.32.22283 · Cited by 200

Crystal Structure of a DinB Lesion Bypass DNA Polymerase Catalytic Fragment Reveals a Classic Polymerase Catalytic Domain

Zhou, B.-L., Pata, J. D., & Steitz, T. A. (2001) · Molecular Cell · doi:10.1016/s1097-2765(01)00310-0 · Cited by 198

Interaction with PCNA Is Essential for Yeast DNA Polymerase η Function

Haracska, L., Kondratick, C. M., Unk, I., Prakash, S., & Prakash, L. (2001) · Molecular Cell · doi:10.1016/s1097-2765(01)00319-7 · Cited by 198

5'-Deoxyribose Phosphate Lyase Activity of Human DNA Polymerase ɩ in Vitro

Bębenek, K., Tissier, A., Frank, E. G., McDonald, J. P., Prasad, R., Wilson, S. H., Woodgate, R., & Kunkel, T. A. (2001) · Science · doi:10.1126/science.1058386 · Cited by 197

Archaeal DNA Replication: Identifying the Pieces to Solve a Puzzle

Cann, I., & Ishino, Y. (1999) · Genetics · doi:10.1093/genetics/152.4.1249 · Cited by 193

Pol κ: A DNA Polymerase Required for Sister Chromatid Cohesion

Wang, Z., Castaño, I., Peñas, A. D. L., Adams, C., & Christman, M. F. (2000) · Science · doi:10.1126/science.289.5480.774 · Cited by 186

DNA Polymerase λ, a Novel DNA Repair Enzyme in Human Cells

García–Díaz, M., Bębenek, K., Sabariegos, R., Domı́nguez, O., Rodrı́guez, J., Kirchhoff, T., García‐Palomero, E., Picher, Á. J., Juárez, R., Ruiz, J. F., et al. (2002) · Journal of Biological Chemistry · doi:10.1074/jbc.m111601200 · Cited by 184

A Human REV7 Homolog That Interacts with the Polymerase ζ Catalytic Subunit hREV3 and the Spindle Assembly Checkpoint Protein hMAD2

Murakumo, Y., Roth, T., Ishii, H., Rasio, D., Numata, S., Croce, C. M., & Fishel, R. A. (2000) · Journal of Biological Chemistry · doi:10.1074/jbc.275.6.4391 · Cited by 181

Crystal structure of a DinB family error-prone DNA polymerase from Sulfolobus solfataricus.

Silvian, L. F., Toth, E. A., Pham, P., Goodman, M. F., & Ellenberger, T. E. (2001) · Nature Structural Biology · doi:10.1038/nsb1101-984 · Cited by 179

Polymerase Mu Is a DNA-Directed DNA/RNA Polymerase

McElhinny, S. A. N., & Ramsden, D. A. (2003) · Molecular and Cellular Biology · doi:10.1128/mcb.23.7.2309-2315.2003 · Cited by 179

Crystal structure of a benzo[ a ]pyrene diol epoxide adduct in a ternary complex with a DNA polymerase

Ling, H., Sayer, J. M., Plosky, B. S., Yagi, H., Boudsocq, F., Woodgate, R., Jerina, D. M., & Yang, W. (2004) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0308332100 · Cited by 175

Disruption of the developmentally regulated Rev3l gene causes embryonic lethality

Wittschieben, J. P., Shivji, M. K. K., Lalani, E., Jacobs, M. A., Marini, F., Gearhart, P. J., Rosewell, I. R., Stamp, G., & Wood, R. D. (2000) · Current Biology · doi:10.1016/s0960-9822(00)00725-9 · Cited by 173

129-derived Strains of Mice Are Deficient in DNA Polymerase ι and Have Normal Immunoglobulin Hypermutation

McDonald, J. P., Frank, E. G., Plosky, B. S., Rogozin, I. B., Masutani, C., Hanaoka, F., Woodgate, R., & Gearhart, P. J. (2003) · The Journal of Experimental Medicine · doi:10.1084/jem.20030767 · Cited by 172

Defective DNA polymerase-δ proofreading causes cancer susceptibility in mice

Goldsby, R. E., Lawrence, N. A., Hays, L. E., Olmsted, E. A., Chen, X., Singh, M., & Preston, B. D. (2001) · Nature Medicine · doi:10.1038/88963 · Cited by 171

The biochemistry and biological significance of nonhomologous DNA end joining: an essential repair process in multicellular eukaryotes

Lieber, M. R. (1999) · Genes to Cells · doi:10.1046/j.1365-2443.1999.00245.x · Cited by 171

RAD9 and DNA polymerase epsilon form parallel sensory branches for transducing the DNA damage checkpoint signal in Saccharomyces cerevisiae.Preprint

Navas, T. A., Sánchez, Y., & Elledge, S. J. (1996) · Genes & Development · doi:10.1101/gad.10.20.2632 · Cited by 167

High incidence of epithelial cancers in mice deficient for DNA polymerase δ proofreading

Goldsby, R. E., Hays, L. E., Chen, X., Olmsted, E. A., Slayton, W. B., Spangrude, G. J., & Preston, B. D. (2002) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.232340999 · Cited by 166

Two Essential DNA Polymerases at the Bacterial Replication Fork

Dervyn, E., Suski, C., Daniel, R. A., Bruand, C., Chapuis, J., Errington, J., Jannière, L., & Ehrlich, S. D. (2001) · Science · doi:10.1126/science.1066351 · Cited by 166

Two novel human and mouse DNA polymerases of the polX family

Aoufouchi, S. (2000) · Nucleic Acids Research · doi:10.1093/nar/28.18.3684 · Cited by 166

Disruption of the Rev3l-encoded catalytic subunit of polymerase ζ in mice results in early embryonic lethality

Esposito, G., Godin, I., Klein, U., Yaspo, M., Cumano, A., & Rajewsky, K. (2000) · Current Biology · doi:10.1016/s0960-9822(00)00726-0 · Cited by 166

Structural Insights into the Origins of DNA Polymerase Fidelity

Beard, W. A., & Wilson, S. H. (2003) · Structure · doi:10.1016/s0969-2126(03)00051-0 · Cited by 157

Active Site Mutation in DNA Polymerase γ Associated with Progressive External Ophthalmoplegia Causes Error-prone DNA Synthesis

Ponamarev, M. V., Longley, M. J., Nguyen, D., Kunkel, T. A., & Copeland, W. C. (2002) · Journal of Biological Chemistry · doi:10.1074/jbc.c200100200 · Cited by 156

Crystal Structure and Deletion Analysis Show that the Accessory Subunit of Mammalian DNA Polymerase γ, PolγB, Functions as a Homodimer

Carrodeguas, J. A., Theis, K., Bogenhagen, D. F., & Kisker, C. (2001) · Molecular Cell · doi:10.1016/s1097-2765(01)00153-8 · Cited by 150

Disruption of mouse polymerase ζ (Rev3) leads to embryonic lethality and impairs blastocyst development in vitro

Bemark, M., Khamlichi, A. A., Davies, S. L., & Neuberger, M. S. (2000) · Current Biology · doi:10.1016/s0960-9822(00)00724-7 · Cited by 149

Chromosomal replicases as asymmetric dimers: studies of subunit arrangement and functional consequences

McHenry, C. S. (2003) · Molecular Microbiology · doi:10.1046/j.1365-2958.2003.03645.x · Cited by 148

Structural design of a eukaryotic DNA repair polymerase: DNA polymerase β

Beard, W. A., & Wilson, S. H. (2000) · Mutation Research/DNA Repair · doi:10.1016/s0921-8777(00)00029-x · Cited by 147

Oxidative DNA damage processing in nuclear and mitochondrial DNA

Bohr, V. A., & Dianov, G. L. (1999) · Biochimie · doi:10.1016/s0300-9084(99)80048-0 · Cited by 145

Immunoglobulin κ Light Chain Gene Rearrangement Is Impaired in Mice Deficient for DNA Polymerase Mu

Bertocci, B., Smet, A. D., Berek, C., Weill, J., & Reynaud, C. (2003) · Immunity · doi:10.1016/s1074-7613(03)00203-6 · Cited by 140

DNA repair synthesis during base excision repair in vitro is catalyzed by DNA polymerase epsilon and is influenced by DNA polymerases alpha and delta in Saccharomyces cerevisiae.

Wang, Z., Wu, X., & Friedberg, E. C. (1993) · Molecular and Cellular Biology · doi:10.1128/mcb.13.2.1051 · Cited by 138

Cid13 Is a Cytoplasmic Poly(A) Polymerase that Regulates Ribonucleotide Reductase mRNA

Saitoh, S., Chabes, A., McDonald, W. H., Thelander, L., Yates, J. R., & Russell, P. R. (2002) · Cell · doi:10.1016/s0092-8674(02)00753-5 · Cited by 132

Error-Prone DNA Polymerases

Friedberg, E. C., Fischhaber, P. L., & Kisker, C. (2001) · Cell · doi:10.1016/s0092-8674(01)00509-8 · Cited by 130

3′ → 5′ Exonucleases of DNA Polymerases ϵ and δ Correct Base Analog Induced DNA Replication Errors on Opposite DNA Strands in Saccharomyces cerevisiae

Shcherbakova, P. V., & Pavlov, Y. I. (1996) · Genetics · doi:10.1093/genetics/142.3.717 · Cited by 130

A mammalian protein complex that repairs double-strand breaks and deletions by recombination

Jessberger, R., Podust, V. N., Hübscher, U., & Berg, P. R. (1993) · Journal of Biological Chemistry · doi:10.1016/s0021-9258(18)82439-5 · Cited by 129

Efficiency of Correct Nucleotide Insertion Governs DNA Polymerase Fidelity

Beard, W. A., Shock, D. D., Vande Berg, B. J., & Wilson, S. H. (2002) · Journal of Biological Chemistry · doi:10.1074/jbc.m210036200 · Cited by 129

Cutting Edge: DNA Polymerases μ and λ Are Dispensable for Ig Gene Hypermutation

Bertocci, B., Smet, A. D., Flatter, E., Dahan, A., Bories, J.-C., Landreau, C., Weill, J., & Reynaud, C. (2002) · The Journal of Immunology · doi:10.4049/jimmunol.168.8.3702 · Cited by 127

A model for SOS-lesion-targeted mutations in Escherichia coli

Pham, P., Bertram, J. G., O’Donnell, M. E., Woodgate, R., & Goodman, M. F. (2001) · Nature · doi:10.1038/35053116 · Cited by 127

A Structural Solution for the DNA Polymerase λ-Dependent Repair of DNA Gaps with Minimal Homology

Garcia-Diaz, M., Bebenek, K., Krahn, J. M., Blanco, L., Kunkel, T. A., & Pedersen, L. C. (2004) · Molecular Cell · doi:10.1016/s1097-2765(04)00061-9 · Cited by 126

Cloning and Chromosomal Mapping of the Human DNA Polymerase θ (POLQ), the Eighth Human DNA Polymerase

Sharief, F. S., Vojta, P. J., Ropp, P. A., & Copeland, W. C. (1999) · Genomics · doi:10.1006/geno.1999.5843 · Cited by 118

A novel mechanism for preventing mutations caused by oxidation of guanine nucleotides

Ishibashi, T., Hayakawa, H., & Sekiguchi, M. (2003) · EMBO Reports · doi:10.1038/sj.embor.embor838 · Cited by 118

A Physical and Functional Interaction between Yeast Pol4 and Dnl4-Lif1 Links DNA Synthesis and Ligation in Nonhomologous End Joining

Tseng, H.-M., & Tomkinson, A. E. (2002) · Journal of Biological Chemistry · doi:10.1074/jbc.m206861200 · Cited by 117

A role for DNA primase in coupling DNA replication to DNA damage response

Marini, F., Pellicioli, A., Paciotti, V., Lucchini, G., Plevani, P., Stern, D. F., & Foiani, M. (1997) · The EMBO Journal · doi:10.1093/emboj/16.3.639 · Cited by 116

DNA polymerase alpha, a component of the replication initiation complex, is essential for the checkpoint coupling S phase to mitosis in fission yeast

D’Urso, G., Grallert, B., & Nurse, P. (1995) · Journal of Cell Science · doi:10.1242/jcs.108.9.3109 · Cited by 116

DNA Polymerase II ( polB ) Is Involved in a New DNA Repair Pathway for DNA Interstrand Cross-Links in Escherichia coli

Berardini, M. D., Foster, P. L., & Loechler, E. L. (1999) · Journal of Bacteriology · doi:10.1128/jb.181.9.2878-2882.1999 · Cited by 116

POLN, a Nuclear PolA Family DNA Polymerase Homologous to the DNA Cross-link Sensitivity Protein Mus308

Marini, F., Kim, N., Schuffert, A., & Wood, R. D. (2003) · Journal of Biological Chemistry · doi:10.1074/jbc.m305646200 · Cited by 111

The DNA Replication Machine of a Gram-positive Organism

Bruck, I., & O’Donnell, M. E. (2000) · Journal of Biological Chemistry · doi:10.1074/jbc.m003565200 · Cited by 97

Lack of sugar discrimination by human Pol requires a single glycine residue

Ruiz, J. F. (2003) · Nucleic Acids Research · doi:10.1093/nar/gkg637 · Cited by 94

Roles of DNA polymerases V and II in SOS-induced error-prone and error-free repair in Escherichia coli

Pham, P., Rangarajan, S., Woodgate, R., & Goodman, M. F. (2001) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.111007198 · Cited by 91

DNA Polymerase Gamma in Mitochondrial DNA Replication and Repair

Copeland, W. C., & Longley, M. J. (2003) · The Scientific World JOURNAL · doi:10.1100/tsw.2003.09 · Cited by 91

Checkpoint-Dependent Activation of Mutagenic Repair in Saccharomyces cerevisiae pol3-01 Mutants

Datta, A., Schmeits, J. L., Amin, N. S., Lau, P. J., Myung, K., & Kolodner, R. D. (2000) · Molecular Cell · doi:10.1016/s1097-2765(00)00058-7 · Cited by 91

Role of the Putative Zinc Finger Domain of Saccharomyces cerevisiae DNA Polymerase ε in DNA Replication and the S/M Checkpoint Pathway

Dua, R., Levy, D. L., & Campbell, J. L. (1998) · Journal of Biological Chemistry · doi:10.1074/jbc.273.45.30046 · Cited by 89

Human DNA Polymerase ε Colocalizes with Proliferating Cell Nuclear Antigen and DNA Replication Late, but Not Early, in S Phase

Fuss, J. O., & Linn, S. (2002) · Journal of Biological Chemistry · doi:10.1074/jbc.m110615200 · Cited by 87

Highly Frequent Frameshift DNA Synthesis by Human DNA Polymerase μ

Zhang, Y., Wu, X., Yuan, F., Xie, Z., & Wang, Z. (2001) · Molecular and Cellular Biology · doi:10.1128/mcb.21.23.7995-8006.2001 · Cited by 83

The DNA Polymerase III Holoenzyme

Glover, B. P., & McHenry, C. S. (2001) · Cell · doi:10.1016/s0092-8674(01)00400-7 · Cited by 71

Functions of Eukaryotic DNA Polymerases

Shcherbakova, P. V., Bębenek, K., & Kunkel, T. A. (2003) · Science of Aging Knowledge Environment · doi:10.1126/sageke.2003.8.re3 · Cited by 69

Lesion Bypass Activities of Human DNA Polymerase μ

Zhang, Y., Wu, X., Guo, D., Rechkoblit, O., Taylor, J., Geacintov, N. E., & Wang, Z. (2002) · Journal of Biological Chemistry · doi:10.1074/jbc.m207297200 · Cited by 68

Cid1, a Fission Yeast Protein Required for S-M Checkpoint Control when DNA Polymerase δ or ɛ Is Inactivated

Wang, S.-W., Toda, T., MacCallum, R. M., Harris, A. L., & Norbury, C. J. (2000) · Molecular and Cellular Biology · doi:10.1128/mcb.20.9.3234-3244.2000 · Cited by 68

Protein–protein interactions during mammalian DNA single-strand break repair

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MutT‐related error avoidance mechanism for DNA synthesis

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