Recognition and repair of chemically heterogeneous structures at DNA ends

ATP-driven Rad50 conformations regulate DNA tethering, end resection, and ATM checkpoint signaling

(2014) R. A. Deshpande et al.   EMBO JOURNAL

Ribose--An Internal Threat to DNA

(2014) K. W. Caldecott   SCIENCE

Flap Endonuclease 1

(2013) Lata Balakrishnan et al.   Annual Review of Biochemistry

Human Apurinic/Apyrimidinic Endonuclease 1

(2013) Mengxia Li et al.   ANTIOXIDANTS & REDOX SIGNALING

Observing a DNA Polymerase Choose Right from Wrong

(2013) Bret D. Freudenthal et al.   CELL

DNA strand break repair and neurodegeneration

(2013) Stuart L. Rulten et al.   DNA REPAIR

Two distinct mechanisms of Topoisomerase 1-dependent mutagenesis in yeast

(2013) Jang-Eun Cho et al.   DNA REPAIR

DNA glycosylases search for and remove oxidized DNA bases

(2013) Susan S. Wallace   ENVIRONMENTAL AND MOLECULAR MUTAGENESIS

Base excision repair in the mammalian brain: Implication for age related neurodegeneration

(2013) Peter Sykora et al.   MECHANISMS OF AGEING AND DEVELOPMENT

Activation of a Novel Ubiquitin-Independent Proteasome Pathway when RNA Polymerase II Encounters a Protein Roadblock

(2013) Y. Ban et al.   MOLECULAR AND CELLULAR BIOLOGY

Topoisomerase 1-Mediated Removal of Ribonucleotides from Nascent Leading-Strand DNA

(2013) Jessica S. Williams et al.   MOLECULAR CELL

Aprataxin resolves adenylated RNA–DNA junctions to maintain genome integrity

(2013) Percy Tumbale et al.   NATURE

Tracking the processing of damaged DNA double-strand break ends by ligation-mediated PCR: increased persistence of 3′-phosphoglycolate termini in SCAN1 cells

(2013) Konstantin Akopiants et al.   NUCLEIC ACIDS RESEARCH

Cross-over of RNA 3'-phosphate ligase into the DNA world

(2013) S.-y. N. Huang et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

APE2 is required for ATR-Chk1 checkpoint activation in response to oxidative stress

(2013) J. Willis et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Rewriting the rules for end joining via enzymatic splicing of DNA 3'-PO4 and 5'-OH ends

(2013) U. Das et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Coincident Resection at Both Ends of Random, γ–Induced Double-Strand Breaks Requires MRX (MRN), Sae2 (Ctp1), and Mre11-Nuclease

(2013) James W. Westmoreland et al.   PLoS Genetics

TDP2–Dependent Non-Homologous End-Joining Protects against Topoisomerase II–Induced DNA Breaks and Genome Instability in Cells and In Vivo

(2013) Fernando Gómez-Herreros et al.   PLoS Genetics

Drugging Topoisomerases: Lessons and Challenges

(2012) Yves Pommier   ACS Chemical Biology

Non-homologous end-joining partners in a helical dance: structural studies of XLF–XRCC4 interactions

(2012) Qian Wu et al.   BIOCHEMICAL SOCIETY TRANSACTIONS

Solution Structure of the Dickerson DNA Dodecamer Containing a Single Ribonucleotide

(2012) Eugene F. DeRose et al.   BIOCHEMISTRY

XRCC4 and XLF form long helical protein filaments suitable for DNA end protection and alignment to facilitate DNA double strand break repair

(2012) Brandi L. Mahaney et al.   Biochemistry and Cell Biology

Enzymatic Removal of Ribonucleotides from DNA Is Essential for Mammalian Genome Integrity and Development

(2012) Martin A.M. Reijns et al.   CELL

Specificity of the dRP/AP Lyase of Ku Promotes Nonhomologous End Joining (NHEJ) Fidelity at Damaged Ends

(2012) Natasha Strande et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Mammalian RNase H2 removes ribonucleotides from DNA to maintain genome integrity

(2012) Bjoern Hiller et al.   JOURNAL OF EXPERIMENTAL MEDICINE

RNase H2-Initiated Ribonucleotide Excision Repair

(2012) Justin L. Sparks et al.   MOLECULAR CELL

Structure of Mre11–Nbs1 complex yields insights into ataxia-telangiectasia–like disease mutations and DNA damage signaling

(2012) Christian B Schiller et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Mechanism of repair of 5′-topoisomerase II–DNA adducts by mammalian tyrosyl-DNA phosphodiesterase 2

(2012) Matthew J Schellenberg et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Structural basis for recognition of 5′-phosphotyrosine adducts by Tdp2

(2012) Ke Shi et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Flap endonucleases pass 5′-flaps through a flexible arch using a disorder-thread-order mechanism to confer specificity for free 5′-ends

(2012) Nikesh Patel et al.   NUCLEIC ACIDS RESEARCH

Impact of PNKP mutations associated with microcephaly, seizures and developmental delay on enzyme activity and DNA strand break repair

(2012) John J. Reynolds et al.   NUCLEIC ACIDS RESEARCH

A human XRCC4–XLF complex bridges DNA

(2012) Sara N. Andres et al.   NUCLEIC ACIDS RESEARCH

Structural basis for the recognition and cleavage of abasic DNA in Neisseria meningitidis

(2012) D. Lu et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

An RNA virus hijacks an incognito function of a DNA repair enzyme

(2012) R. Virgen-Slane et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

DNA base excision repair: a mechanism of trinucleotide repeat expansion

(2012) Yuan Liu et al.   TRENDS IN BIOCHEMICAL SCIENCES

Repair of the Major Lesion Resulting from C5′-Oxidation of DNA

(2011) Kwan-Young Jung et al.   BIOCHEMISTRY

FEN Nucleases: Bind, Bend, Fray, Cut

(2011) R. Scott Williams et al.   CELL

Human Flap Endonuclease Structures, DNA Double-Base Flipping, and a Unified Understanding of the FEN1 Superfamily

(2011) Susan E. Tsutakawa et al.   CELL

Structures of Human Exonuclease 1 DNA Complexes Suggest a Unified Mechanism for Nuclease Family

(2011) Jillian Orans et al.   CELL

XRCC4 controls nuclear import and distribution of Ligase IV and exchanges faster at damaged DNA in complex with Ligase IV

(2011) Elke Berg et al.   DNA REPAIR

DNA end resection—Unraveling the tail

(2011) Eleni P. Mimitou et al.   DNA REPAIR

Crystal structure of the Mre11-Rad50-ATP S complex: understanding the interplay between Mre11 and Rad50

(2011) H. S. Lim et al.   GENES & DEVELOPMENT

Ribonucleotide Discrimination and Reverse Transcription by the Human Mitochondrial DNA Polymerase

(2011) Rajesh Kasiviswanathan et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Human Mre11/Human Rad50/Nbs1 and DNA Ligase IIIα/XRCC1 Protein Complexes Act Together in an Alternative Nonhomologous End Joining Pathway

(2011) Julie Della-Maria et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

XRCC4 Protein Interactions with XRCC4-like Factor (XLF) Create an Extended Grooved Scaffold for DNA Ligation and Double Strand Break Repair

(2011) Michal Hammel et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Characterization of the Endoribonuclease Active Site of Human Apurinic/Apyrimidinic Endonuclease 1

(2011) Wan-Cheol Kim et al.   JOURNAL OF MOLECULAR BIOLOGY

The Structural Basis for Substrate Recognition by Mammalian Polynucleotide Kinase 3′ Phosphatase

(2011) Fernando Garces et al.   MOLECULAR CELL

Bidirectional resection of DNA double-strand breaks by Mre11 and Exo1

(2011) Valerie Garcia et al.   NATURE

ABC ATPase signature helices in Rad50 link nucleotide state to Mre11 interface for DNA repair

(2011) Gareth J Williams et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Structure of an aprataxin–DNA complex with insights into AOA1 neurodegenerative disease

(2011) Percy Tumbale et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

The structural basis for partitioning of the XRCC1/DNA ligase III-α BRCT-mediated dimer complexes

(2011) Matthew J. Cuneo et al.   NUCLEIC ACIDS RESEARCH

ATP driven structural changes of the bacterial Mre11:Rad50 catalytic head complex

(2011) Carolin Möckel et al.   NUCLEIC ACIDS RESEARCH

DNA end processing by polynucleotide kinase/phosphatase

(2011) M. J. Schellenberg et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Structural characterization of filaments formed by human Xrcc4-Cernunnos/XLF complex involved in nonhomologous DNA end-joining

(2011) V. Ropars et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Aprataxin localizes to mitochondria and preserves mitochondrial function

(2011) P. Sykora et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Structural basis for the phosphatase activity of polynucleotide kinase/phosphatase on single- and double-stranded DNA substrates

(2011) N. Coquelle et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Mutagenic Processing of Ribonucleotides in DNA by Yeast Topoisomerase I

(2011) N. Kim et al.   SCIENCE

Tidying up loose ends: the role of polynucleotide kinase/phosphatase in DNA strand break repair

(2011) Michael Weinfeld et al.   TRENDS IN BIOCHEMICAL SCIENCES

CtIP Mutations Cause Seckel and Jawad Syndromes

(2011) Per Qvist et al.   PLoS Genetics

Human DNA Ligase III Recognizes DNA Ends by Dynamic Switching between Two DNA-Bound States

(2010) Elizabeth Cotner-Gohara et al.   BIOCHEMISTRY

Long Patch Base Excision Repair Compensates for DNA Polymerase β Inactivation by the C4′-Oxidized Abasic Site

(2010) Aaron C. Jacobs et al.   BIOCHEMISTRY

Excision of a Lyase-Resistant Oxidized Abasic Lesion from DNA

(2010) Remus S. Wong et al.   CHEMICAL RESEARCH IN TOXICOLOGY

Genetic interactions between HNT3/Aprataxin and RAD27/FEN1 suggest parallel pathways for 5′ end processing during base excision repair

(2010) James M. Daley et al.   DNA REPAIR

XRCC1 phosphorylation by CK2 is required for its stability and efficient DNA repair

(2010) Jason L. Parsons et al.   DNA REPAIR

Substrate Channeling in Mammalian Base Excision Repair Pathways: Passing the Baton

(2010) Rajendra Prasad et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

TDP2/TTRAP Is the Major 5′-Tyrosyl DNA Phosphodiesterase Activity in Vertebrate Cells and Is Critical for Cellular Resistance to Topoisomerase II-induced DNA Damage

(2010) Zhihong Zeng et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

The DNA Damage Response: Making It Safe to Play with Knives

(2010) Alberto Ciccia et al.   MOLECULAR CELL

Mechanism of the ATP-dependent DNA end-resection machinery from Saccharomyces cerevisiae

(2010) Hengyao Niu et al.   NATURE

Ku is a 5′-dRP/AP lyase that excises nucleotide damage near broken ends

(2010) Steven A. Roberts et al.   NATURE

Genome instability due to ribonucleotide incorporation into DNA

(2010) Stephanie A Nick McElhinny et al.   Nature Chemical Biology

Mutations in PNKP cause microcephaly, seizures and defects in DNA repair

(2010) Jun Shen et al.   NATURE GENETICS

Mre11–Rad50–Xrs2 and Sae2 promote 5′ strand resection of DNA double-strand breaks

(2010) Matthew L Nicolette et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

CtIP promotes microhomology-mediated alternative end joining during class-switch recombination

(2010) Mieun Lee-Theilen et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

An essential role for CtIP in chromosomal translocation formation through an alternative end-joining pathway

(2010) Yu Zhang et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

CtIP and MRN promote non-homologous end-joining of etoposide-induced DNA double-strand breaks in G1

(2010) Verena Quennet et al.   NUCLEIC ACIDS RESEARCH

Abundant ribonucleotide incorporation into DNA by yeast replicative polymerases

(2010) S. A. Nick McElhinny et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Oxidation state of the XRCC1 N-terminal domain regulates DNA polymerase   binding affinity

(2010) M. J. Cuneo et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

XLF Regulates Filament Architecture of the XRCC4·Ligase IV Complex

(2010) Michal Hammel et al.   STRUCTURE

Nbs1 Flexibly Tethers Ctp1 and Mre11-Rad50 to Coordinate DNA Double-Strand Break Processing and Repair

(2009) R. Scott Williams et al.   CELL

DNA Topoisomerase I Inhibitors: Chemistry, Biology, and Interfacial Inhibition

(2009) Yves Pommier   CHEMICAL REVIEWS

Aprataxin, poly-ADP ribose polymerase 1 (PARP-1) and apurinic endonuclease 1 (APE1) function together to protect the genome against oxidative damage

(2009) Janelle L. Harris et al.   HUMAN MOLECULAR GENETICS

Ku and DNA-dependent Protein Kinase Dynamic Conformations and Assembly Regulate DNA Binding and the Initial Non-homologous End Joining Complex

(2009) Michal Hammel et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Structural and Functional Interaction between the Human DNA Repair Proteins DNA Ligase IV and XRCC4

(2009) P.-Y. Wu et al.   MOLECULAR AND CELLULAR BIOLOGY

Distinct Requirements for the Rad32Mre11 Nuclease and Ctp1CtIP in the Removal of Covalently Bound Topoisomerase I and II from DNA

(2009) Edgar Hartsuiker et al.   MOLECULAR CELL

A human 5′-tyrosyl DNA phosphodiesterase that repairs topoisomerase-mediated DNA damage

(2009) Felipe Cortes Ledesma et al.   NATURE

Mechanism of DNA substrate recognition by the mammalian DNA repair enzyme, Polynucleotide Kinase

(2009) N. K. Bernstein et al.   NUCLEIC ACIDS RESEARCH

Identification of Apurinic/apyrimidinic endonuclease 1 (APE1) as the endoribonuclease that cleaves c-myc mRNA

(2009) T. Barnes et al.   NUCLEIC ACIDS RESEARCH

CK2 phosphorylation-dependent interaction between aprataxin and MDC1 in the DNA damage response

(2009) Olivier J. Becherel et al.   NUCLEIC ACIDS RESEARCH

Specific recognition of a multiply phosphorylated motif in the DNA repair scaffold XRCC1 by the FHA domain of human PNK

(2009) Ammar A. E. Ali et al.   NUCLEIC ACIDS RESEARCH

Quantitation of cellular deoxynucleoside triphosphates

(2009) Paola Ferraro et al.   NUCLEIC ACIDS RESEARCH

The E3 Ubiquitin-Ligase Bmi1/Ring1A Controls the Proteasomal Degradation of Top2α Cleavage Complex – A Potentially New Drug Target

(2009) Iris Alchanati et al.   PLoS One

Ctp1 and the MRN-Complex Are Required for Endonucleolytic Rec12 Removal with Release of a Single Class of Oligonucleotides in Fission Yeast

(2009) Maja Rothenberg et al.   PLoS Genetics

Mre11 Dimers Coordinate DNA End Bridging and Nuclease Processing in Double-Strand-Break Repair

(2008) R. Scott Williams et al.   CELL

Sgs1 Helicase and Two Nucleases Dna2 and Exo1 Resect DNA Double-Strand Break Ends

(2008) Zhu Zhu et al.   CELL

(–)-Epigallocatechin Gallate, A Major Constituent of Green Tea, Poisons Human Type II Topoisomerases

(2008) Omari J. Bandele et al.   CHEMICAL RESEARCH IN TOXICOLOGY

DNA repair deficiency as a therapeutic target in cancer

(2008) Sarah A Martin et al.   CURRENT OPINION IN GENETICS & DEVELOPMENT

Cellular processing pathways contribute to the activation of etoposide-induced DNA damage responses

(2008) Jia-Rong Fan et al.   DNA REPAIR

APLF (C2orf13) facilitates nonhomologous end-joining and undergoes ATM-dependent hyperphosphorylation following ionizing radiation

(2008) Chloe J. Macrae et al.   DNA REPAIR

Molecular Mechanism of DNA Deadenylation by the Neurological Disease Protein Aprataxin

(2008) Ulrich Rass et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

A Ubiquitin-Proteasome Pathway for the Repair of Topoisomerase I-DNA Covalent Complexes

(2008) Chao-Po Lin et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Defective DNA Ligation during Short-Patch Single-Strand Break Repair in Ataxia Oculomotor Apraxia 1

(2008) J. J. Reynolds et al.   MOLECULAR AND CELLULAR BIOLOGY

Sae2, Exo1 and Sgs1 collaborate in DNA double-strand break processing

(2008) Eleni P. Mimitou et al.   NATURE

The DNA cleavage reaction of topoisomerase II: wolf in sheep's clothing

(2008) J. E. Deweese et al.   NUCLEIC ACIDS RESEARCH

Alternative-NHEJ Is a Mechanistically Distinct Pathway of Mammalian Chromosome Break Repair

(2008) Nicole Bennardo et al.   PLoS Genetics

The Chemical Toxicology of 2-Deoxyribose Oxidation in DNA

(2007) Peter C. Dedon   CHEMICAL RESEARCH IN TOXICOLOGY