Published in Nat Struct Mol Biol on June 27, 2004
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Human ABH3 structure and key residues for oxidative demethylation to reverse DNA/RNA damage. EMBO J (2006) 2.27
Flipping of alkylated DNA damage bridges base and nucleotide excision repair. Nature (2009) 1.70
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Breakage-reunion domain of Streptococcus pneumoniae topoisomerase IV: crystal structure of a gram-positive quinolone target. PLoS One (2007) 1.17
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Distinct roles of RECQ1 in the maintenance of genomic stability. DNA Repair (Amst) (2010) 1.05
Cross-linking of the human DNA repair protein O6-alkylguanine DNA alkyltransferase to DNA in the presence of 1,2,3,4-diepoxybutane. Chem Res Toxicol (2006) 1.05
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A bifunctional DNA repair protein from Ferroplasma acidarmanus exhibits O6-alkylguanine-DNA alkyltransferase and endonuclease V activities. Proc Natl Acad Sci U S A (2005) 0.92
Novel synthesis of O6-alkylguanine containing oligodeoxyribonucleotides as substrates for the human DNA repair protein, O6-methylguanine DNA methyltransferase (MGMT). Nucleic Acids Res (2006) 0.90
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Interactions of human O(6)-alkylguanine-DNA alkyltransferase (AGT) with short double-stranded DNAs. Biochemistry (2008) 0.90
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Genome-wide analysis of alternative splicing in Volvox carteri. BMC Genomics (2014) 0.87
Alkyltransferase-mediated toxicity of 1,3-butadiene diepoxide. Chem Res Toxicol (2008) 0.87
Hexahistidine-tag-specific optical probes for analyses of proteins and their interactions. Anal Biochem (2009) 0.87
Mechanistic and biological aspects of helicase action on damaged DNA. Cell Cycle (2010) 0.86
Topologies of complexes containing O6-alkylguanine-DNA alkyltransferase and DNA. J Mol Biol (2009) 0.86
Repair of O4-alkylthymine by O6-alkylguanine-DNA alkyltransferases. J Biol Chem (2009) 0.86
Genome stability: recent insights in the topoisomerase reverse gyrase and thermophilic DNA alkyltransferase. Extremophiles (2014) 0.85
UV damage endonuclease employs a novel dual-dinucleotide flipping mechanism to recognize different DNA lesions. Nucleic Acids Res (2012) 0.85
Cooperative cluster formation, DNA bending and base-flipping by O6-alkylguanine-DNA alkyltransferase. Nucleic Acids Res (2012) 0.85
Activity and regulation of archaeal DNA alkyltransferase: conserved protein involved in repair of DNA alkylation damage. J Biol Chem (2011) 0.84
Base extrusion is found at helical junctions between right- and left-handed forms of DNA and RNA. Nucleic Acids Res (2009) 0.84
Differential inactivation of polymorphic variants of human O6-alkylguanine-DNA alkyltransferase. Biochem Pharmacol (2007) 0.83
DNA-Protein Cross-Links: Formation, Structural Identities, and Biological Outcomes. Acc Chem Res (2015) 0.83
Detection of protein catalytic residues at high precision using local network properties. BMC Bioinformatics (2008) 0.82
Mutations that probe the cooperative assembly of O⁶-alkylguanine-DNA alkyltransferase complexes. Biochemistry (2011) 0.82
Kinetics of O(6)-methyl-2'-deoxyguanosine repair by O(6)-alkylguanine DNA alkyltransferase within K-ras gene-derived DNA sequences. Chem Res Toxicol (2006) 0.81
Cytosine methylation effects on the repair of O6-methylguanines within CG dinucleotides. J Biol Chem (2009) 0.81
Sculpting of DNA at abasic sites by DNA glycosylase homolog mag2. Structure (2012) 0.80
Lesion Orientation of O(4)-Alkylthymidine Influences Replication by Human DNA Polymerase η. Chem Sci (2016) 0.80
Apparent directional scanning for DNA repair. Biophys J (2007) 0.80
Reversing DNA damage with a directional bias. Nat Struct Mol Biol (2004) 0.80
Substitution of aminomethyl at the meta-position enhances the inactivation of O6-alkylguanine-DNA alkyltransferase by O6-benzylguanine. J Med Chem (2008) 0.80
Atomic Insight into the Altered O6-Methylguanine-DNA Methyltransferase Protein Architecture in Gastric Cancer. PLoS One (2015) 0.79
Lesion-specific DNA-binding and repair activities of human O⁶-alkylguanine DNA alkyltransferase. Nucleic Acids Res (2012) 0.79
MGMT Leu84Phe polymorphism contributes to cancer susceptibility: evidence from 44 case-control studies. PLoS One (2013) 0.79
The effect of a G:T mispair on the dynamics of DNA. PLoS One (2013) 0.79
Biochemical and structural studies of the Mycobacterium tuberculosis O6-methylguanine methyltransferase and mutated variants. J Bacteriol (2013) 0.79
Influence of promoter/enhancer region haplotypes on MGMT transcriptional regulation: a potential biomarker for human sensitivity to alkylating agents. Carcinogenesis (2013) 0.78
Effect of O6-alkylguanine-DNA alkyltransferase on genotoxicity of epihalohydrins. Environ Mol Mutagen (2009) 0.78
Structure-function relationships governing activity and stability of a DNA alkylation damage repair thermostable protein. Nucleic Acids Res (2015) 0.77
Repair of O6-methylguanine adducts in human telomeric G-quadruplex DNA by O6-alkylguanine-DNA alkyltransferase. Nucleic Acids Res (2014) 0.77
Insight into the cooperative DNA binding of the O⁶-alkylguanine DNA alkyltransferase. DNA Repair (Amst) (2014) 0.77
Mass spectrometry based approach to study the kinetics of O6-alkylguanine DNA alkyltransferase-mediated repair of O6-pyridyloxobutyl-2'-deoxyguanosine adducts in DNA. Chem Res Toxicol (2011) 0.77
Histidine-tag-directed chromophores for tracer analyses in the analytical ultracentrifuge. Methods (2010) 0.77
A novel thermostable protein-tag: optimization of the Sulfolobus solfataricus DNA- alkyl-transferase by protein engineering. Extremophiles (2016) 0.77
A quantum chemical study of repair of O6-methylguanine to guanine by tyrosine: evaluation of the winged helix-turn-helix model. J Mol Model (2009) 0.76
Synthesis and characterization of an O(6)-2'-deoxyguanosine-alkyl-O(6)-2'-deoxyguanosine interstrand cross-link in a 5'-GNC motif and repair by human O(6)-alkylguanine-DNA alkyltransferase. Org Biomol Chem (2010) 0.76
Structures of DNA duplexes containing O6-carboxymethylguanine, a lesion associated with gastrointestinal cancer, reveal a mechanism for inducing pyrimidine transition mutations. Nucleic Acids Res (2013) 0.76
On the molecular basis of uracil recognition in DNA: comparative study of T-A versus U-A structure, dynamics and open base pair kinetics. Nucleic Acids Res (2010) 0.76
Base flip in DNA studied by molecular dynamics simulationsof differently-oxidized forms of methyl-Cytosine. Int J Mol Sci (2014) 0.75
Kinetics of O(6)-pyridyloxobutyl-2'-deoxyguanosine repair by human O(6)-alkylguanine DNA alkyltransferase. Biochemistry (2013) 0.75
Synthesis and Antitumor Activity Evaluation of a Novel Combi-nitrosourea Prodrug: BGCNU. ACS Med Chem Lett (2017) 0.75
Resolving the contributions of two cooperative mechanisms to the DNA Binding of AGT. Biopolymers (2015) 0.75
Tumor-associated mutations in O⁶ -methylguanine DNA-methyltransferase (MGMT) reduce DNA repair functionality. Mol Carcinog (2012) 0.75
Mass Spectrometry Based Tools to Characterize DNA-Protein Cross-Linking by Bis-electrophiles. Basic Clin Pharmacol Toxicol (2016) 0.75
Integration of external signaling pathways with the core transcriptional network in embryonic stem cells. Cell (2008) 28.29
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Robust, high-throughput solution structural analyses by small angle X-ray scattering (SAXS). Nat Methods (2009) 6.77
Resolution of cell fate decisions revealed by single-cell gene expression analysis from zygote to blastocyst. Dev Cell (2010) 6.24
Towards a rigorous assessment of systems biology models: the DREAM3 challenges. PLoS One (2010) 4.94
A library of yeast transcription factor motifs reveals a widespread function for Rsc3 in targeting nucleosome exclusion at promoters. Mol Cell (2008) 4.49
Open chromatin defined by DNaseI and FAIRE identifies regulatory elements that shape cell-type identity. Genome Res (2011) 4.43
Type IV pilus structure and bacterial pathogenicity. Nat Rev Microbiol (2004) 4.29
Mre11 dimers coordinate DNA end bridging and nuclease processing in double-strand-break repair. Cell (2008) 4.26
A genome-wide RNAi screen reveals determinants of human embryonic stem cell identity. Nature (2010) 3.84
The Rad50 zinc-hook is a structure joining Mre11 complexes in DNA recombination and repair. Nature (2002) 3.48
Automated server predictions in CASP7. Proteins (2007) 3.40
Type IV pilus structure by cryo-electron microscopy and crystallography: implications for pilus assembly and functions. Mol Cell (2006) 3.36
Structural basis for FEN-1 substrate specificity and PCNA-mediated activation in DNA replication and repair. Cell (2004) 3.33
Accurate assessment of mass, models and resolution by small-angle scattering. Nature (2013) 3.18
XPD helicase structures and activities: insights into the cancer and aging phenotypes from XPD mutations. Cell (2008) 3.14
Mre11-Rad50-Nbs1 is a keystone complex connecting DNA repair machinery, double-strand break signaling, and the chromatin template. Biochem Cell Biol (2007) 3.13
Full-length archaeal Rad51 structure and mutants: mechanisms for RAD51 assembly and control by BRCA2. EMBO J (2003) 2.95
Nbs1 flexibly tethers Ctp1 and Mre11-Rad50 to coordinate DNA double-strand break processing and repair. Cell (2009) 2.90
Characterizing flexible and intrinsically unstructured biological macromolecules by SAS using the Porod-Debye law. Biopolymers (2011) 2.87
Type IV pilin structure and assembly: X-ray and EM analyses of Vibrio cholerae toxin-coregulated pilus and Pseudomonas aeruginosa PAK pilin. Mol Cell (2003) 2.78
SUMO-targeted ubiquitin ligases in genome stability. EMBO J (2007) 2.77
Whole-genome comparison of Leu3 binding in vitro and in vivo reveals the importance of nucleosome occupancy in target site selection. Genome Res (2006) 2.63
Microbial metalloproteomes are largely uncharacterized. Nature (2010) 2.62
Explicit equilibrium modeling of transcription-factor binding and gene regulation. Genome Biol (2005) 2.50
Bridging the solution divide: comprehensive structural analyses of dynamic RNA, DNA, and protein assemblies by small-angle X-ray scattering. Curr Opin Struct Biol (2010) 2.45
Human flap endonuclease structures, DNA double-base flipping, and a unified understanding of the FEN1 superfamily. Cell (2011) 2.44
ATM regulates Mre11-dependent DNA end-degradation and microhomology-mediated end joining. Cell Cycle (2010) 2.32
Structural basis for isozyme-specific regulation of electron transfer in nitric-oxide synthase. J Biol Chem (2004) 2.28
Human ABH3 structure and key residues for oxidative demethylation to reverse DNA/RNA damage. EMBO J (2006) 2.27
The intricate structural chemistry of base excision repair machinery: implications for DNA damage recognition, removal, and repair. DNA Repair (Amst) (2007) 2.26
A flexible interface between DNA ligase and PCNA supports conformational switching and efficient ligation of DNA. Mol Cell (2006) 2.23
DNA base damage recognition and removal: new twists and grooves. Mutat Res (2005) 2.21
The DNA repair endonuclease XPG interacts directly and functionally with the WRN helicase defective in Werner syndrome. Cell Cycle (2011) 2.15
Conserved XPB core structure and motifs for DNA unwinding: implications for pathway selection of transcription or excision repair. Mol Cell (2006) 2.13
Identification of a new cryptochrome class. Structure, function, and evolution. Mol Cell (2003) 2.11
A SIM-ultaneous role for SUMO and ubiquitin. Trends Biochem Sci (2008) 2.05
Integrative model of genomic factors for determining binding site selection by estrogen receptor-α. Mol Syst Biol (2010) 2.04
Assessment of CASP7 structure predictions for template free targets. Proteins (2007) 1.98
Mre11-Rad50-Nbs1 conformations and the control of sensing, signaling, and effector responses at DNA double-strand breaks. DNA Repair (Amst) (2010) 1.96
Rad50/SMC proteins and ABC transporters: unifying concepts from high-resolution structures. Curr Opin Struct Biol (2003) 1.93
DIP-chip: rapid and accurate determination of DNA-binding specificity. Genome Res (2005) 1.91
Ku and DNA-dependent protein kinase dynamic conformations and assembly regulate DNA binding and the initial non-homologous end joining complex. J Biol Chem (2009) 1.91
MDB: the Metalloprotein Database and Browser at The Scripps Research Institute. Nucleic Acids Res (2002) 1.89
Recognition of RNA polymerase II and transcription bubbles by XPG, CSB, and TFIIH: insights for transcription-coupled repair and Cockayne Syndrome. Mol Cell (2005) 1.89
Accurate SAXS profile computation and its assessment by contrast variation experiments. Biophys J (2013) 1.83
Evaluating methods for isolating total RNA and predicting the success of sequencing phylogenetically diverse plant transcriptomes. PLoS One (2012) 1.82
ALS mutants of human superoxide dismutase form fibrous aggregates via framework destabilization. J Mol Biol (2003) 1.82
Identification of cis elements directing termination of yeast nonpolyadenylated snoRNA transcripts. Mol Cell Biol (2004) 1.81
Polyamine catabolism and disease. Biochem J (2009) 1.79
Hexameric structures of the archaeal secretion ATPase GspE and implications for a universal secretion mechanism. EMBO J (2007) 1.77
Control of transcription through intragenic patterns of nucleosome composition. Cell (2005) 1.77
DNA charge transport as a first step in coordinating the detection of lesions by repair proteins. Proc Natl Acad Sci U S A (2012) 1.71
A structural model for regulation of NHEJ by DNA-PKcs autophosphorylation. DNA Repair (Amst) (2010) 1.71
Flipping of alkylated DNA damage bridges base and nucleotide excision repair. Nature (2009) 1.70
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DNA double-strand break repair from head to tail. Curr Opin Struct Biol (2002) 1.67
ABC ATPase signature helices in Rad50 link nucleotide state to Mre11 interface for DNA repair. Nat Struct Mol Biol (2011) 1.66
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Phase I trial of temozolomide plus O6-benzylguanine for patients with recurrent or progressive malignant glioma. J Clin Oncol (2005) 1.63
The crystal structure of spermidine synthase with a multisubstrate adduct inhibitor. Nat Struct Biol (2002) 1.63
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Improving small-angle X-ray scattering data for structural analyses of the RNA world. RNA (2010) 1.60
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Phase II trial of carmustine plus O(6)-benzylguanine for patients with nitrosourea-resistant recurrent or progressive malignant glioma. J Clin Oncol (2002) 1.50
XRCC4 protein interactions with XRCC4-like factor (XLF) create an extended grooved scaffold for DNA ligation and double strand break repair. J Biol Chem (2011) 1.48
Protein mimicry of DNA and pathway regulation. DNA Repair (Amst) (2005) 1.46
DNA apurinic-apyrimidinic site binding and excision by endonuclease IV. Nat Struct Mol Biol (2008) 1.46
X-linked spermine synthase gene (SMS) defect: the first polyamine deficiency syndrome. Eur J Hum Genet (2003) 1.45
XPB and XPD helicases in TFIIH orchestrate DNA duplex opening and damage verification to coordinate repair with transcription and cell cycle via CAK kinase. DNA Repair (Amst) (2011) 1.45
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Assessment of intramolecular contact predictions for CASP7. Proteins (2007) 1.40
Report of the wwPDB Small-Angle Scattering Task Force: data requirements for biomolecular modeling and the PDB. Structure (2013) 1.39
Crystal structure of human spermine synthase: implications of substrate binding and catalytic mechanism. J Biol Chem (2008) 1.39
Proliferating cell nuclear antigen loaded onto double-stranded DNA: dynamics, minor groove interactions and functional implications. Nucleic Acids Res (2006) 1.37
Structural basis for endothelial nitric oxide synthase binding to calmodulin. EMBO J (2003) 1.37
Functional motifs in the (6-4) photolyase crystal structure make a comparative framework for DNA repair photolyases and clock cryptochromes. Proc Natl Acad Sci U S A (2009) 1.36
Super-resolution in solution X-ray scattering and its applications to structural systems biology. Annu Rev Biophys (2013) 1.36
DNA binding, nucleotide flipping, and the helix-turn-helix motif in base repair by O6-alkylguanine-DNA alkyltransferase and its implications for cancer chemotherapy. DNA Repair (Amst) (2007) 1.36
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XLF regulates filament architecture of the XRCC4·ligase IV complex. Structure (2010) 1.33
Human DNA ligase III recognizes DNA ends by dynamic switching between two DNA-bound states. Biochemistry (2010) 1.32
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Structural dynamics in DNA damage signaling and repair. Curr Opin Struct Biol (2010) 1.31
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Cloning, expression, and characterization of a nitric oxide synthase protein from Deinococcus radiodurans. Proc Natl Acad Sci U S A (2001) 1.30
Comprehensive macromolecular conformations mapped by quantitative SAXS analyses. Nat Methods (2013) 1.29
Degradation of the alkylated form of the DNA repair protein, O(6)-alkylguanine-DNA alkyltransferase. Carcinogenesis (2002) 1.29
gammaH2A binds Brc1 to maintain genome integrity during S-phase. EMBO J (2010) 1.28
Structural characterization of zinc-deficient human superoxide dismutase and implications for ALS. J Mol Biol (2007) 1.26
Structures of endonuclease V with DNA reveal initiation of deaminated adenine repair. Nat Struct Mol Biol (2009) 1.26
A novel processive mechanism for DNA synthesis revealed by structure, modeling and mutagenesis of the accessory subunit of human mitochondrial DNA polymerase. J Mol Biol (2006) 1.25
Anchored plasticity opens doors for selective inhibitor design in nitric oxide synthase. Nat Chem Biol (2008) 1.25
High-throughput SAXS for the characterization of biomolecules in solution: a practical approach. Methods Mol Biol (2014) 1.22
The C-terminal domain of yeast PCNA is required for physical and functional interactions with Cdc9 DNA ligase. Nucleic Acids Res (2007) 1.21
Structural analysis of flexible proteins in solution by small angle X-ray scattering combined with crystallography. J Struct Biol (2006) 1.21
Insights into Lou Gehrig's disease from the structure and instability of the A4V mutant of human Cu,Zn superoxide dismutase. J Mol Biol (2002) 1.20