Visualizing the Search for Radiation-damaged DNA Bases in Real Time

scientific article published on 13 May 2016

Visualizing the Search for Radiation-damaged DNA Bases in Real Time is …
instance of (P31):
scholarly articleQ13442814

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P356DOI10.1016/J.RADPHYSCHEM.2016.05.011
P932PMC publication ID5091662
P698PubMed publication ID27818579

P2093author name stringSusan S Wallace
Andrea J Lee
P2860cites workIdentification and characterization of a human DNA glycosylase for repair of modified bases in oxidatively damaged DNAQ24531459
Structural analysis of an Escherichia coli endonuclease VIII covalent reaction intermediateQ24534729
Early steps in the DNA base excision/single-strand interruption repair pathway in mammalian cellsQ24650179
Overview of base excision repair biochemistryQ27021659
The Fpg/Nei family of DNA glycosylases: substrates, structures, and search for damageQ27021912
Structure of formamidopyrimidine-DNA glycosylase covalently complexed to DNAQ27638483
Structure of a trapped endonuclease III-DNA covalent intermediateQ27641607
Structural Characterization of a Mouse Ortholog of Human NEIL3 with a Marked Preference for Single-Stranded DNAQ27675877
Structural Characterization of Viral Ortholog of Human DNA Glycosylase NEIL1 Bound to Thymine Glycol or 5-Hydroxyuracil-containing DNAQ27676196
Strandwise translocation of a DNA glycosylase on undamaged DNAQ27676544
A novel human DNA glycosylase that removes oxidative DNA damage and is homologous to Escherichia coli endonuclease VIIIQ28201222
In Vitro and in Vivo Dimerization of Human Endonuclease III Stimulates Its ActivityQ28206421
Truncation of amino-terminal tail stimulates activity of human endonuclease III (hNTH1)Q28216160
AP endonuclease-independent DNA base excision repair in human cellsQ28272662
The mouse ortholog of NEIL3 is a functional DNA glycosylase in vitro and in vivoQ28586574
Base-excision repair of oxidative DNA damageQ29615373
A base-excision DNA-repair protein finds intrahelical lesion bases by fast sliding in contact with DNA.Q30477242
Single-molecule analysis reveals human UV-damaged DNA-binding protein (UV-DDB) dimerizes on DNA via multiple kinetic intermediatesQ30577983
Insights into the glycosylase search for damage from single-molecule fluorescence microscopyQ30585004
RPA physically interacts with the human DNA glycosylase NEIL1 to regulate excision of oxidative DNA base damage in primer-template structuresQ33546272
Two glycosylase families diffusively scan DNA using a wedge residue to probe for and identify oxidatively damaged basesQ33665271
Mutation versus repair: NEIL1 removal of hydantoin lesions in single-stranded, bulge, bubble, and duplex DNA contextsQ33858180
Nonspecifically bound proteins spin while diffusing along DNA.Q33929106
DNA damage produced by ionizing radiation in mammalian cells: identities, mechanisms of formation, and reparabilityQ34164868
Visualizing one-dimensional diffusion of eukaryotic DNA repair factors along a chromatin latticeQ34193203
Prereplicative repair of oxidized bases in the human genome is mediated by NEIL1 DNA glycosylase together with replication proteinsQ34360665
Neil3 and NEIL1 DNA glycosylases remove oxidative damages from quadruplex DNA and exhibit preferences for lesions in the telomeric sequence contextQ34362594
The mechanism of switching among multiple BER pathways.Q34367265
Preferential repair of oxidized base damage in the transcribed genes of mammalian cellsQ34675663
Active destabilization of base pairs by a DNA glycosylase wedge initiates damage recognitionQ34883466
Clustered DNA lesion repair in eukaryotes: relevance to mutagenesis and cell survivalQ35004467
Repair mechanisms for oxidative DNA damageQ35109446
The enigma of endonuclease VIII.Q35114231
Single Qdot-labeled glycosylase molecules use a wedge amino acid to probe for lesions while scanning along DNAQ35224383
The NEIL glycosylases remove oxidized guanine lesions from telomeric and promoter quadruplex DNA structuresQ35562087
Mammalian DNA base excision repair proteins: their interactions and role in repair of oxidative DNA damageQ35576447
Mechanism of translocation of uracil-DNA glycosylase from Escherichia coli between distributed lesionsQ35644673
A Role for the Fifth G-Track in G-Quadruplex Forming Oncogene Promoter Sequences during Oxidative Stress: Do These "Spare Tires" Have an Evolved Function?Q36063330
The DNA trackwalkers: principles of lesion search and recognition by DNA glycosylasesQ36153889
Abortive base-excision repair of radiation-induced clustered DNA lesions in Escherichia coliQ36309404
Oxidative DNA damage repair in mammalian cells: a new perspectiveQ36658399
Uracil DNA glycosylase uses DNA hopping and short-range sliding to trap extrahelical uracilsQ36825207
Physical and functional interaction between human oxidized base-specific DNA glycosylase NEIL1 and flap endonuclease 1Q36914462
Superior removal of hydantoin lesions relative to other oxidized bases by the human DNA glycosylase hNEIL1Q36952958
Clustered DNA damages induced in isolated DNA and in human cells by low doses of ionizing radiationQ37142830
Real-time studies of conformational dynamics of the repair enzyme E. coli formamidopyrimidine-DNA glycosylase and its DNA complexes during catalytic cycleQ37596621
DNA glycosylases search for and remove oxidized DNA basesQ37719258
Processivity of Escherichia coli and rat liver mitochondrial uracil-DNA glycosylase is affected by NaCl concentrationQ38295498
Conformational Dynamics of DNA Repair by Escherichia coli Endonuclease IIIQ38299797
Pre-steady-state kinetic study of substrate specificity of Escherichia coli formamidopyrimidine--DNA glycosylaseQ38305953
Structure of a DNA glycosylase searching for lesionsQ38315509
Recognition of the oxidized lesions spiroiminodihydantoin and guanidinohydantoin in DNA by the mammalian base excision repair glycosylases NEIL1 and NEIL2.Q38334473
Pre-steady-state kinetics shows differences in processing of various DNA lesions by Escherichia coli formamidopyrimidine-DNA glycosylaseQ38344919
Biological significance of facilitated diffusion in protein-DNA interactions. Applications to T4 endonuclease V-initiated DNA repairQ41241989
Thermodynamics of the multi-stage DNA lesion recognition and repair by formamidopyrimidine-DNA glycosylase using pyrrolocytosine fluorescence--stopped-flow pre-steady-state kineticsQ42157248
Reversible chemical step and rate-limiting enzyme regeneration in the reaction catalyzed by formamidopyrimidine-DNA glycosylase.Q43260157
Attempted base excision repair of ionizing radiation damage in human lymphoblastoid cells produces lethal and mutagenic double strand breaksQ45036068
Molecular analysis of plasmid DNA repair within ultraviolet-irradiated Escherichia coli. I. T4 endonuclease V-initiated excision repairQ45054263
Processivity of uracil DNA glycosylaseQ46111504
Base excision repair by hNTH1 and hOGG1: a two edged sword in the processing of DNA damage in gamma-irradiated human cellsQ46660124
Correlated cleavage of single- and double-stranded substrates by uracil-DNA glycosylaseQ46803790
Interaction of the human DNA glycosylase NEIL1 with proliferating cell nuclear antigen. The potential for replication-associated repair of oxidized bases in mammalian genomesQ46886711
Uracil DNA N-glycosylase distributively interacts with duplex polynucleotides containing repeating units of either TGGCCAAGCU or TGGCCAAGCTTGGCCAAGCU.Q54627595
Enzymatic processing of radiation-induced free radical damage in DNAQ62061101
In vitro repair of synthetic ionizing radiation-induced multiply damaged DNA sitesQ64388853
Biochemistry of DNA lesionsQ69853208
Some biochemical consequences of the spatial distribution of ionizing radiation-produced free radicalsQ70150203
P921main subjectvisualizationQ451553
P304page(s)126-133
P577publication date2016-05-13
P1433published inRadiation Physics and ChemistryQ3416466
P1476titleVisualizing the Search for Radiation-damaged DNA Bases in Real Time
P478volume128

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cites work (P2860)
Q92344116Clustered DNA Damages induced by 0.5 to 30 eV Electrons
Q39014392Hide and seek: How do DNA glycosylases locate oxidatively damaged DNA bases amidst a sea of undamaged bases?
Q52337039Kinetics and Thermodynamics of DNA Processing by Wild Type DNA-Glycosylase Endo III and Its Catalytically Inactive Mutant Forms.
Q38785912Mutational and Kinetic Analysis of Lesion Recognition by Escherichia coli Endonuclease VIII
Q47756226Pre-steady-state kinetic analysis of damage recognition by human single-strand selective monofunctional uracil-DNA glycosylase SMUG1.
Q39200289Repair of oxidatively induced DNA damage by DNA glycosylases: Mechanisms of action, substrate specificities and excision kinetics
Q57454231Substrate specificity of human apurinic/apyrimidinic endonuclease APE1 in the nucleotide incision repair pathway
Q98463557Transient binding and jumping dynamics of p53 along DNA revealed by sub-millisecond resolved single-molecule fluorescence tracking

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