Two glycosylase families diffusively scan DNA using a wedge residue to probe for and identify oxidatively damaged bases

scientific article

Two glycosylase families diffusively scan DNA using a wedge residue to probe for and identify oxidatively damaged bases is …
instance of (P31):
scholarly articleQ13442814

External links are
P819ADS bibcode2014PNAS..111E2091N
P356DOI10.1073/PNAS.1400386111
P932PMC publication ID4034194
P698PubMed publication ID24799677
P5875ResearchGate publication ID262076287

P50authorSusan S WallaceQ41886664
P2093author name stringDavid M Warshaw
Shane R Nelson
Scott D Kathe
Andrew R Dunn
P2860cites workStructural analysis of an Escherichia coli endonuclease VIII covalent reaction intermediateQ24534729
Crystal structure of the Lactococcus lactis formamidopyrimidine-DNA glycosylase bound to an abasic site analogue-containing DNA.Q24536790
The Fpg/Nei family of DNA glycosylases: substrates, structures, and search for damageQ27021912
Crystal structure of a neutralizing human IGG against HIV-1: a template for vaccine designQ27634018
Structure of formamidopyrimidine-DNA glycosylase covalently complexed to DNAQ27638483
Structural insights into lesion recognition and repair by the bacterial 8-oxoguanine DNA glycosylase MutMQ27639141
Structure of a trapped endonuclease III-DNA covalent intermediateQ27641607
DNA lesion recognition by the bacterial repair enzyme MutMQ27642268
Crystallographic Analysis of a Sex-Specific Enhancer Element: Sequence-Dependent DNA Structure, Hydration, and DynamicsQ27652818
Structural Characterization of a Viral NEIL1 Ortholog Unliganded and Bound to Abasic Site-containing DNAQ27656645
Entrapment and Structure of an Extrahelical Guanine Attempting to Enter the Active Site of a Bacterial DNA Glycosylase, MutMQ27658059
Structural and biochemical studies of a plant formamidopyrimidine-DNA glycosylase reveal why eukaryotic Fpg glycosylases do not excise 8-oxoguanineQ27670719
Structural Characterization of Viral Ortholog of Human DNA Glycosylase NEIL1 Bound to Thymine Glycol or 5-Hydroxyuracil-containing DNAQ27676196
Structural and Biochemical Analysis of DNA Helix Invasion by the Bacterial 8-Oxoguanine DNA Glycosylase MutMQ27676354
Strandwise translocation of a DNA glycosylase on undamaged DNAQ27676544
Novel DNA binding motifs in the DNA repair enzyme endonuclease III crystal structureQ27729885
The oxidative DNA glycosylases of Mycobacterium tuberculosis exhibit different substrate preferences from their Escherichia coli counterpartsQ28487547
Repair of oxidative damage to DNA: enzymology and biologyQ29618065
A base-excision DNA-repair protein finds intrahelical lesion bases by fast sliding in contact with DNA.Q30477242
Collaborative dynamic DNA scanning by nucleotide excision repair proteins investigated by single- molecule imaging of quantum-dot-labeled proteinsQ30576104
Dynamic opening of DNA during the enzymatic search for a damaged baseQ30976865
Automatic tracking of individual fluorescence particles: application to the study of chromosome dynamics.Q33224137
Nonspecifically bound proteins spin while diffusing along DNA.Q33929106
Initiation of base excision repair: glycosylase mechanisms and structuresQ33953558
Atomic structure of the DNA repair [4Fe-4S] enzyme endonuclease IIIQ34256473
Base excision repair.Q34374847
Biological consequences of free radical-damaged DNA bases.Q34710048
Repair of endogenous DNA damageQ35132488
Structural characterization of the Fpg family of DNA glycosylasesQ35189594
Single Qdot-labeled glycosylase molecules use a wedge amino acid to probe for lesions while scanning along DNAQ35224383
Thymine glycols and urea residues in M13 DNA constitute replicative blocks in vitro.Q35564216
Rapid determination of the active fraction of DNA repair glycosylases: a novel fluorescence assay for trapped intermediates.Q35781828
DNA base damage recognition and removal: new twists and groovesQ36154767
Excision repair of thymine glycols, urea residues, and apurinic sites in Escherichia coliQ36209696
Mitochondria in homeostasis of reactive oxygen species in cell, tissues, and organismQ36231438
Abortive base-excision repair of radiation-induced clustered DNA lesions in Escherichia coliQ36309404
Real-time studies of conformational dynamics of the repair enzyme E. coli formamidopyrimidine-DNA glycosylase and its DNA complexes during catalytic cycleQ37596621
Pre-steady-state kinetic study of substrate specificity of Escherichia coli formamidopyrimidine--DNA glycosylaseQ38305953
Structure of a DNA glycosylase searching for lesionsQ38315509
Pre-steady-state kinetics shows differences in processing of various DNA lesions by Escherichia coli formamidopyrimidine-DNA glycosylaseQ38344919
Escherichia coli Fpg protein and UvrABC endonuclease repair DNA damage induced by methylene blue plus visible light in vivo and in vitroQ39941772
Enzymatic recognition of DNA modifications induced by singlet oxygen and photosensitizersQ40524933
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
Characterization of the Escherichia coli X-ray endonuclease, endonuclease III.Q43860794
Escherichia coli MutY and Fpg utilize a processive mechanism for target locationQ44282301
Attempted base excision repair of ionizing radiation damage in human lymphoblastoid cells produces lethal and mutagenic double strand breaksQ45036068
Correlated cleavage of damaged DNA by bacterial and human 8-oxoguanine-DNA glycosylasesQ46450712
Base excision repair by hNTH1 and hOGG1: a two edged sword in the processing of DNA damage in gamma-irradiated human cellsQ46660124
Insight into the roles of tyrosine 82 and glycine 253 in the Escherichia coli adenine glycosylase MutY.Q46771307
Singlet oxygen-induced DNA damage.Q50480325
Spiroiminodihydantoin is the major product of the 8-oxo-7,8-dihydroguanosine reaction with peroxynitrite in the presence of thiols and guanosine photooxidation by methylene blue.Q50506194
Substrate specificity of the Escherichia coli Fpg protein (formamidopyrimidine-DNA glycosylase): excision of purine lesions in DNA produced by ionizing radiation or photosensitization.Q50796195
Oxidative DNA Glycosylases: Recipes from Cloning to CharacterizationQ62061093
In vitro repair of synthetic ionizing radiation-induced multiply damaged DNA sitesQ64388853
Removal of hydantoin products of 8-oxoguanine oxidation by the Escherichia coli DNA repair enzyme, FPGQ73255571
P4510describes a project that usesImageJQ1659584
P433issue20
P407language of work or nameEnglishQ1860
P304page(s)E2091-9
P577publication date2014-05-05
P1433published inProceedings of the National Academy of Sciences of the United States of AmericaQ1146531
P1476titleTwo glycosylase families diffusively scan DNA using a wedge residue to probe for and identify oxidatively damaged bases
P478volume111

Reverse relations

cites work (P2860)
Q462542228-Oxoguanine DNA glycosylase 1: Beyond repair of the oxidatively modified base lesions.
Q89022604A conserved loop-wedge motif moderates reaction site search and recognition by FEN1
Q46547366Analysis of alcohol-induced DNA damage in Escherichia coli by visualizing single genomic DNA molecules
Q99616731Automated AFM analysis of DNA bending reveals initial lesion sensing strategies of DNA glycosylases
Q90505681Bacterial phenotypic heterogeneity in DNA repair and mutagenesis
Q38594076Base excision repair in chromatin: Insights from reconstituted systems
Q33908163Base excision repair: a critical player in many games
Q55321915Base-flipping dynamics from an intrahelical to an extrahelical state exerted by thymine DNA glycosylase during DNA repair process.
Q44877350Cohesin SA2 is a sequence independent DNA binding protein that recognizes DNA replication and repair intermediates.
Q38299797Conformational Dynamics of DNA Repair by Escherichia coli Endonuclease III
Q34489683Critical role of DNA intercalation in enzyme-catalyzed nucleotide flipping
Q36104463DNA charge transport within the cell
Q35559885DNA exit ramps are revealed in the binding landscapes obtained from simulations in helical coordinates
Q33580434DNA polymerase β uses its lyase domain in a processive search for DNA damage
Q99710946Dependence of DNA length on binding affinity between TrpR and trpO of DNA
Q47264860Enhanced spontaneous DNA twisting/bending fluctuations unveiled by fluorescence lifetime distributions promote mismatch recognition by the Rad4 nucleotide excision repair complex
Q30837444Functional interplay between SA1 and TRF1 in telomeric DNA binding and DNA-DNA pairing
Q60919861Guidelines for DNA recombination and repair studies: Mechanistic assays of DNA repair processes
Q39014392Hide and seek: How do DNA glycosylases locate oxidatively damaged DNA bases amidst a sea of undamaged bases?
Q47226636High free-energy barrier of 1D diffusion along DNA by architectural DNA-binding proteins
Q89597805How p53 Molecules Solve the Target DNA Search Problem: A Review
Q30585004Insights into the glycosylase search for damage from single-molecule fluorescence microscopy
Q46413562Interrogation of Base Pairing of the Spiroiminodihydantoin Diastereomers Using the α-Hemolysin Latch
Q52337039Kinetics and Thermodynamics of DNA Processing by Wild Type DNA-Glycosylase Endo III and Its Catalytically Inactive Mutant Forms.
Q35171647Lesion search and recognition by thymine DNA glycosylase revealed by single molecule imaging.
Q38785912Mutational and Kinetic Analysis of Lesion Recognition by Escherichia coli Endonuclease VIII
Q50954935One-Dimensional Search Dynamics of Tumor Suppressor p53 Regulated by a Disordered C-Terminal Domain.
Q47756226Pre-steady-state kinetic analysis of damage recognition by human single-strand selective monofunctional uracil-DNA glycosylase SMUG1.
Q51099354Probing the activity of NTHL1 orthologs by targeting conserved amino acid residues.
Q39200289Repair of oxidatively induced DNA damage by DNA glycosylases: Mechanisms of action, substrate specificities and excision kinetics
Q48024031Search for DNA damage by human alkyladenine DNA glycosylase involves early intercalation by an aromatic residue.
Q42290408Search for Modified DNA Sites with the Human Methyl-CpG-Binding Enzyme MBD4.
Q48267124Simplified qPCR method for detecting excessive mtDNA damage induced by exogenous factors.
Q90316573Single molecule analysis reveals monomeric XPA bends DNA and undergoes episodic linear diffusion during damage search
Q64226584Single molecule glycosylase studies with engineered 8-oxoguanine DNA damage sites show functional defects of a MUTYH polyposis variant
Q42633406Single-Molecule Methods for Nucleotide Excision Repair: Building a System to Watch Repair in Real Time.
Q49354543Single-molecule live-cell imaging of bacterial DNA repair and damage tolerance
Q41055617Single-molecule visualization of ROS-induced DNA damage in large DNA molecules
Q38288631Spore photoproduct within DNA is a surprisingly poor substrate for its designated repair enzyme-The spore photoproduct lyase
Q57454231Substrate specificity of human apurinic/apyrimidinic endonuclease APE1 in the nucleotide incision repair pathway
Q92988358The Role of Active-Site Residues Phe98, His239, and Arg243 in DNA Binding and in the Catalysis of Human Uracil-DNA Glycosylase SMUG1
Q27938970Twist-open mechanism of DNA damage recognition by the Rad4/XPC nucleotide excision repair complex
Q47264926Two-step interrogation then recognition of DNA binding site by Integration Host Factor: an architectural DNA-bending protein
Q64993432Uncovering universal rules governing the selectivity of the archetypal DNA glycosylase TDG.
Q42683844Visualizing the Search for Radiation-damaged DNA Bases in Real Time

Search more.