| scholarly article | Q13442814 |
| P2093 | author name string | X Shao | |
| N V Grishin | |||
| P2860 | cites work | Structure of the DNA repair and replication endonuclease and exonuclease FEN-1: coupling DNA and PCNA binding to FEN-1 activity | Q22003979 |
| Dali/FSSP classification of three-dimensional protein folds | Q24544111 | ||
| Gapped BLAST and PSI-BLAST: a new generation of protein database search programs | Q24545170 | ||
| DNA-binding proteins and evolution of transcription regulation in the archaea | Q24548890 | ||
| Amino acid substitution matrices from protein blocks | Q24563220 | ||
| SMART, a simple modular architecture research tool: identification of signaling domains | Q24597380 | ||
| SAM as a protein interaction domain involved in developmental regulation | Q24673762 | ||
| Crystal structures of complexes of PcrA DNA helicase with a DNA substrate indicate an inchworm mechanism | Q27617870 | ||
| The N-terminal domain of the human Rad51 protein binds DNA: structure and a DNA binding surface as revealed by NMR | Q27618897 | ||
| Solution structure of a conserved C-terminal domain of p73 with structural homology to the SAM domain. | Q27619390 | ||
| DNA bending and a flip-out mechanism for base excision by the helix–hairpin–helix DNA glycosylase, Escherichia coli AlkA | Q27621390 | ||
| Structural basis for recognition and repair of the endogenous mutagen 8-oxoguanine in DNA | Q27621681 | ||
| Solution structure of the activator contact domain of the RNA polymerase alpha subunit | Q27729311 | ||
| Crystal structure of rat DNA polymerase beta: evidence for a common polymerase mechanism | Q27729370 | ||
| Crystal structure of Thermus aquaticus DNA polymerase | Q27729817 | ||
| Novel DNA binding motifs in the DNA repair enzyme endonuclease III crystal structure | Q27729885 | ||
| 2.3 A crystal structure of the catalytic domain of DNA polymerase beta | Q27731249 | ||
| Three-dimensional solution structure of the N-terminal domain of DNA polymerase beta and mapping of the ssDNA interaction interface | Q27732733 | ||
| A helical arch allowing single-stranded DNA to thread through T5 5'-exonuclease | Q27732809 | ||
| Structure of bacteriophage T4 RNase H, a 5' to 3' RNA-DNA and DNA-DNA exonuclease with sequence similarity to the RAD2 family of eukaryotic proteins | Q27732948 | ||
| Structural basis for the excision repair of alkylation-damaged DNA | Q27733235 | ||
| Crystal structures of human DNA polymerase beta complexed with DNA: implications for catalytic mechanism, processivity, and fidelity | Q27733467 | ||
| Characterization of the metal ion binding helix-hairpin-helix motifs in human DNA polymerase beta by X-ray structural analysis | Q27733484 | ||
| Crystal structures of human DNA polymerase beta complexed with gapped and nicked DNA: evidence for an induced fit mechanism | Q27742804 | ||
| Functional analyses of the domain structure in the Holliday junction binding protein RuvA | Q27748899 | ||
| Crystal structure of E.coli RuvA with bound DNA Holliday junction at 6 A resolution | Q27758823 | ||
| The crystal structure of flap endonuclease-1 from Methanococcus jannaschii | Q27765093 | ||
| Solution structure of the cellular factor BAF responsible for protecting retroviral DNA from autointegration | Q27765728 | ||
| MutY catalytic core, mutant and bound adenine structures define specificity for DNA repair enzyme superfamily | Q27766319 | ||
| The crystal structure of an Eph receptor SAM domain reveals a mechanism for modular dimerization | Q27766469 | ||
| Oligomeric structure of the human EphB2 receptor SAM domain | Q27766879 | ||
| SCOP: a structural classification of proteins database for the investigation of sequences and structures | Q27860689 | ||
| Protein structure alignment by incremental combinatorial extension (CE) of the optimal path | Q27861005 | ||
| Hidden Markov models for sequence analysis: extension and analysis of the basic method | Q28286314 | ||
| Pfam 3.1: 1313 multiple alignments and profile HMMs match the majority of proteins | Q28291030 | ||
| Arac/XylS family of transcriptional regulators | Q28776772 | ||
| Analysis of compositionally biased regions in sequence databases | Q29614389 | ||
| Iterated profile searches with PSI-BLAST--a tool for discovery in protein databases | Q29618634 | ||
| Surprising similarities in structure comparison | Q29620326 | ||
| Gleaning non-trivial structural, functional and evolutionary information about proteins by iterative database searches | Q29622868 | ||
| How far divergent evolution goes in proteins | Q30431003 | ||
| The Zn-peptidase superfamily: functional convergence after evolutionary divergence | Q31402036 | ||
| Protein Data Bank archives of three-dimensional macromolecular structures. | Q33464364 | ||
| Envisioning the molecular choreography of DNA base excision repair | Q33536610 | ||
| Zinc finger proteins: watchdogs in muscle development | Q33548083 | ||
| The basic region/helix-loop-helix/leucine zipper domain of Myc proto-oncoproteins: function and regulation | Q33667309 | ||
| Zinc-finger proteins: the classical zinc finger emerges in contemporary plant science | Q33669262 | ||
| The alpha-subunit of protein prenyltransferases is a member of the tetratricopeptide repeat family | Q33871433 | ||
| The helix-hairpin-helix DNA-binding motif: a structural basis for non-sequence-specific recognition of DNA. | Q34602847 | ||
| Improving the quality of NMR and crystallographic protein structures by means of a conformational database potential derived from structure databases | Q36279917 | ||
| Structure of the Ets-1 pointed domain and mitogen-activated protein kinase phosphorylation site. | Q36518727 | ||
| Non-globular domains in protein sequences: automated segmentation using complexity measures | Q36726009 | ||
| Do basic region-leucine zipper proteins bend their DNA targets ... does it matter? | Q37320321 | ||
| SEALS: a system for easy analysis of lots of sequences. | Q38457841 | ||
| The FSSP database: fold classification based on structure-structure alignment of proteins | Q38564157 | ||
| Unified catalytic mechanism for DNA glycosylases. | Q40560384 | ||
| Cloning of a yeast 8-oxoguanine DNA glycosylase reveals the existence of a base-excision DNA-repair protein superfamily | Q42638192 | ||
| SCOP: a Structural Classification of Proteins database. | Q52229910 | ||
| SCOP: a Structural Classification of Proteins database | Q56039751 | ||
| Parameterization studies for the SAM and HMMER methods of hidden Markov model generation | Q71698654 | ||
| DNA recognition and superstructure formation by helix-turn-helix proteins | Q71763497 | ||
| Structural similarities between Escherichia coli RuvA protein and other DNA-binding proteins and a mutational analysis of its binding to the holliday junction | Q74507052 | ||
| P433 | issue | 14 | |
| P407 | language of work or name | English | Q1860 |
| P921 | main subject | protein folding | Q847556 |
| helical hairpin | Q60761532 | ||
| P304 | page(s) | 2643-2650 | |
| P577 | publication date | 2000-07-01 | |
| P1433 | published in | Nucleic Acids Research | Q135122 |
| P1476 | title | Common fold in helix-hairpin-helix proteins | |
| P478 | volume | 28 |
| Q28219332 | A back-up glycosylase in Nth1 knock-out mice is a functional Nei (endonuclease VIII) homologue |
| Q33823011 | A highly conserved family of domains related to the DNA-glycosylase fold helps predict multiple novel pathways for RNA modifications |
| Q42577922 | A novel branching enzyme of the GH-57 family in the hyperthermophilic archaeon Thermococcus kodakaraensis KOD1. |
| Q28601400 | A vocabulary of ancient peptides at the origin of folded proteins |
| Q35965155 | An intersubunit contact stimulating transcription initiation by E coli RNA polymerase: interaction of the alpha C-terminal domain and sigma region 4. |
| Q30385668 | Analysis of CASP8 targets, predictions and assessment methods. |
| Q33726874 | Antimutator role of DNA glycosylase MutY in pathogenic Neisseria species |
| Q24671798 | Barrier-to-autointegration factor: major roles in chromatin decondensation and nuclear assembly |
| Q34091700 | Biophysical characterization of DNA binding from single molecule force measurements |
| Q54485205 | Biophysical characterization of the interaction domains and mapping of the contact residues in the XPF-ERCC1 complex. |
| Q24805465 | Classification and evolutionary history of the single-strand annealing proteins, RecT, Redbeta, ERF and RAD52 |
| Q27317580 | ComEA is essential for the transfer of external DNA into the periplasm in naturally transformable Vibrio cholerae cells |
| Q24317588 | Complex formation by the human Rad51B and Rad51C DNA repair proteins and their activities in vitro |
| Q38313901 | Complex of the herpes simplex virus type 1 origin binding protein UL9 with DNA as a platform for the design of a new type of antiviral drugs |
| Q27649998 | Crystal Structure and RNA Binding of the Tex Protein from Pseudomonas aeruginosa |
| Q27667298 | Crystal Structures of the S. cerevisiae Spt6 Core and C-Terminal Tandem SH2 Domain |
| Q27647139 | Crystal structure of bacteriophage T4 5' nuclease in complex with a branched DNA reveals how flap endonuclease-1 family nucleases bind their substrates |
| Q41827776 | DNA stabilization at the Bacillus subtilis PolX core--a binding model to coordinate polymerase, AP-endonuclease and 3'-5' exonuclease activities |
| Q37151160 | Distinct double- and single-stranded DNA binding of E. coli replicative DNA polymerase III alpha subunit |
| Q24815002 | Distinct roles for two RAD51-related genes in Trypanosoma brucei antigenic variation |
| Q34349930 | Engineered DNA ligases with improved activities in vitro |
| Q30156980 | Evolution of outer membrane beta-barrels from an ancestral beta beta hairpin |
| Q35077442 | Fine structure of E. coli RNA polymerase-promoter interactions: alpha subunit binding to the UP element minor groove |
| Q43939685 | Flexible elements in the structure of promoter DNA as probed by cationic surfactant binding. |
| Q60916341 | Function and Interactions of ERCC1-XPF in DNA Damage Response |
| Q24536076 | Helix-hairpin-helix motifs confer salt resistance and processivity on chimeric DNA polymerases |
| Q53350381 | Identification of a common sphingolipid-binding domain in Alzheimer, prion, and HIV-1 proteins. |
| Q35676652 | Identification of a second DNA binding site in the human Rad52 protein |
| Q40068041 | Identifying DNA-binding proteins using structural motifs and the electrostatic potential |
| Q24601713 | Improvement of φ29 DNA polymerase amplification performance by fusion of DNA binding motifs |
| Q36234801 | Inhibition of acetyl phosphate-dependent transcription by an acetylatable lysine on RNA polymerase |
| Q34147089 | Initiation of eukaryotic DNA replication: regulation and mechanisms |
| Q36817974 | Methanopyrus kandleri topoisomerase V contains three distinct AP lyase active sites in addition to the topoisomerase active site |
| Q34004749 | Mode of DNA-protein interaction between the C-terminal domain of Escherichia coli RNA polymerase alpha subunit and T7D promoter UP element |
| Q38355371 | Modeling of Flap Endonuclease Interactions with DNA Substrate |
| Q34559075 | Modularity and specialization in superfamily 1 and 2 helicases |
| Q28117289 | Novel adhesin from Pasteurella multocida that binds to the integrin-binding fibronectin FnIII9-10 repeats |
| Q35100696 | NusA interaction with the α subunit of E. coli RNA polymerase is via the UP element site and releases autoinhibition |
| Q37378660 | Optical tweezers experiments resolve distinct modes of DNA-protein binding. |
| Q28315177 | PIC: Protein Interactions Calculator |
| Q30017519 | Phenotypic Heterogeneity Affects Stenotrophomonas maltophilia K279a Colony Morphotypes and β-Lactamase Expression |
| Q36626668 | Prokaryotic nucleotide excision repair. |
| Q37727698 | Radical S-adenosylmethionine enzymes |
| Q33575267 | Radical SAM enzymes in methylation and methylthiolation |
| Q37071897 | Relevance of UP elements for three strong Bacillus subtilis phage phi29 promoters |
| Q34290861 | Role of ATP hydrolysis by UvrA and UvrB during nucleotide excision repair |
| Q55186299 | SHOC1 is a ERCC4-(HhH)2-like protein, integral to the formation of crossover recombination intermediates during mammalian meiosis. |
| Q42130238 | Selectivity of Enzymatic Conversion of Oligonucleotide Probes during Nucleotide Polymorphism Analysis of DNA. |
| Q33722839 | Sequence-independent upstream DNA-alphaCTD interactions strongly stimulate Escherichia coli RNA polymerase-lacUV5 promoter association |
| Q54511634 | Sequence-specific 1H, 13C, 15N resonance assignments and secondary structure of the carboxyterminal domain of the E. coli transcription factor NusA. |
| Q51232457 | Single-stranded DNA Binding by the Helix-Hairpin-Helix Domain of XPF Protein Contributes to the Substrate Specificity of the ERCC1-XPF Protein Complex. |
| Q27639934 | Solution structure and DNA-binding properties of the C-terminal domain of UvrC from E.coli |
| Q24645321 | Specific recognition of RNA/DNA hybrid and enhancement of human RNase H1 activity by HBD |
| Q27667611 | Structural Basis for Methyl Transfer by a Radical SAM Enzyme |
| Q27648064 | Structural and Functional Analyses of Five Conserved Positively Charged Residues in the L1 and N-Terminal DNA Binding Motifs of Archaeal RadA Protein |
| Q41792393 | Structural basis for DNA bridging by barrier-to-autointegration factor |
| Q37535243 | Structural basis for the interaction of Escherichia coli NusA with protein N of phage lambda |
| Q36469251 | Structural diversity in the AdoMet radical enzyme superfamily. |
| Q37108394 | Structural studies of type I topoisomerases |
| Q27679861 | Structure analysis of FAAP24 reveals single-stranded DNA-binding activity and domain functions in DNA damage response |
| Q41376744 | Structure of an XPF endonuclease with and without DNA suggests a model for substrate recognition. |
| Q27643639 | Structure of the C-terminal half of UvrC reveals an RNase H endonuclease domain with an Argonaute-like catalytic triad |
| Q24541378 | Structure of the N-terminal fragment of topoisomerase V reveals a new family of topoisomerases |
| Q30330510 | TRILOGY: Discovery of sequence-structure patterns across diverse proteins. |
| Q38293167 | Targeting Holliday junctions by origin DNA-binding protein of herpes simplex virus type 1. |
| Q39615512 | The C-terminal region of Escherichia coli UvrC contributes to the flexibility of the UvrABC nucleotide excision repair system |
| Q41842912 | The E. coli NusA carboxy-terminal domains are structurally similar and show specific RNAP- and lambdaN interaction |
| Q27678074 | The Fanconi anemia associated protein FAAP24 uses two substrate specific binding surfaces for DNA recognition |
| Q34586948 | The HhH2/NDD domain of the Drosophila Nod chromokinesin-like protein is required for binding to chromosomes in the oocyte nucleus |
| Q46975920 | The NH2-terminal php domain of the alpha subunit of the Escherichia coli replicase binds the epsilon proofreading subunit |
| Q42317231 | The SMX DNA Repair Tri-nuclease |
| Q43815826 | The domain organization and properties of individual domains of DNA topoisomerase V, a type 1B topoisomerase with DNA repair activities. |
| Q33939002 | The epithelium-specific ETS protein EHF/ESE-3 is a context-dependent transcriptional repressor downstream of MAPK signaling cascades |
| Q27644101 | The structure of the first representative of Pfam family PF09836 reveals a two-domain organization and suggests involvement in transcriptional regulation |
| Q33948382 | UP element-dependent transcription at the Escherichia coli rrnB P1 promoter: positional requirements and role of the RNA polymerase alpha subunit linker. |
| Q83827760 | XPF-ERCC1: on the bubble |
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