(Q30612214)

English

SURVEY AND SUMMARY: holliday junction resolvases and related nucleases: identification of new families, phyletic distribution and evolutionary trajectories

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scholarly article

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Europe PubMed Central

13 September 2017

SURVEY AND SUMMARY: holliday junction resolvases and related nucleases: identification of new families, phyletic distribution and evolutionary trajectories (English)

1 reference

Europe PubMed Central

13 September 2017

3

object named as

E V Koonin

1 reference

Europe PubMed Central

13 September 2017

1

object named as

L Aravind

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author name string

L Aravind

1

1 reference

Europe PubMed Central

13 September 2017

K S Makarova

2

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Europe PubMed Central

13 September 2017

language of work or name

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publication date

1 September 2000

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Europe PubMed Central

13 September 2017

number of pages

16

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inferred from page(s)

Nucleic Acids Research

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Europe PubMed Central

13 September 2017

28

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Europe PubMed Central

13 September 2017

3417-3432

1 reference

Europe PubMed Central

13 September 2017

18

1 reference

Europe PubMed Central

13 September 2017

Comparative genome analysis of the pathogenic spirochetes Borrelia burgdorferi and Treponema pallidum

1 reference

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28 July 2018

Mutation and recombination in the upstream homology box-flanked ospE-related genes of the Lyme disease spirochetes result in the development of new antigenic variants during infection

1 reference

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28 July 2018

Understanding the immutability of restriction enzymes: crystal structure of BglII and its DNA substrate at 1.5 A resolution

1 reference

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28 July 2018

The bacterial replicative helicase DnaB evolved from a RecA duplication

1 reference

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28 July 2018

Recognition of a TG mismatch: the crystal structure of very short patch repair endonuclease in complex with a DNA duplex

1 reference

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28 July 2018

Shaping the genome--restriction-modification systems as mobile genetic elements.

1 reference

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28 July 2018

A phylogenomic study of DNA repair genes, proteins, and processes

1 reference

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28 July 2018

SCOP: a structural classification of proteins database

1 reference

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28 July 2018

The COG database: a tool for genome-scale analysis of protein functions and evolution

1 reference

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28 July 2018

DNA-binding proteins and evolution of transcription regulation in the archaea

1 reference

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28 July 2018

Integrating DNA: transposases and retroviral integrases

1 reference

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Crystal structure of MunI restriction endonuclease in complex with cognate DNA at 1.7 A resolution

1 reference

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28 July 2018

Protein secondary structure prediction based on position-specific scoring matrices

1 reference

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28 July 2018

Holliday junction processing in bacteria: insights from the evolutionary conservation of RuvABC, RecG, and RusA

1 reference

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28 July 2018

Why is Deinococcus radiodurans so resistant to ionizing radiation?

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28 July 2018

Characterization of the interaction of lambda exonuclease with the ends of DNA.

1 reference

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28 July 2018

Did DNA replication evolve twice independently?

1 reference

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28 July 2018

A Holliday junction resolvase from Pyrococcus furiosus: functional similarity to Escherichia coli RuvC provides evidence for conserved mechanism of homologous recombination in Bacteria, Eukarya, and Archaea

1 reference

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28 July 2018

Comparative genomics of the Archaea (Euryarchaeota): evolution of conserved protein families, the stable core, and the variable shell.

1 reference

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28 July 2018

The crystal structure of the DNase domain of colicin E7 in complex with its inhibitor Im7 protein

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=110722

28 July 2018

Crystallographic and functional studies of very short patch repair endonuclease

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=110722

28 July 2018

X-ray structure of T4 endonuclease VII: a DNA junction resolvase with a novel fold and unusual domain-swapped dimer architecture

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=110722

28 July 2018

Shope fibroma virus DNA topoisomerase catalyses holliday junction resolution and hairpin formation in vitro

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=110722

28 July 2018

Profile hidden Markov models

1 reference

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28 July 2018

Catalytic and binding mutants of the junction-resolving enzyme endonuclease I of bacteriophage t7: role of acidic residues

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=110722

28 July 2018

In vitro processing of herpes simplex virus type 1 DNA replication intermediates by the viral alkaline nuclease, UL12

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=110722

28 July 2018

Protein sequence similarity searches using patterns as seeds

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=110722

28 July 2018

Structural, functional, and evolutionary relationships between lambda-exonuclease and the type II restriction endonucleases

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=110722

28 July 2018

Immunity proteins and their specificity for endonuclease colicins: telling right from wrong in protein-protein recognition.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=110722

28 July 2018

SWISS-MODEL and the Swiss-PdbViewer: an environment for comparative protein modeling

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=110722

28 July 2018

Structural basis for MutH activation in E.coli mismatch repair and relationship of MutH to restriction endonucleases

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=110722

28 July 2018

The proofreading domain of Escherichia coli DNA polymerase I and other DNA and/or RNA exonuclease domains

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=110722

28 July 2018

The CLUSTAL_X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=110722

28 July 2018

SEALS: a system for easy analysis of lots of sequences.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=110722

28 July 2018

Toroidal structure of lambda-exonuclease

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=110722

28 July 2018

Gapped BLAST and PSI-BLAST: a new generation of protein database search programs

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=110722

28 July 2018

Protein fold recognition by prediction-based threading

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=110722

28 July 2018

Archaea and the origin(s) of DNA replication proteins

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=110722

28 July 2018

Structure of the multimodular endonuclease FokI bound to DNA

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=110722

28 July 2018

Antigenic variation in Lyme disease borreliae by promiscuous recombination of VMP-like sequence cassettes

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=110722

28 July 2018

Extracting protein alignment models from the sequence database

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=110722

28 July 2018

The resolving enzyme CCE1 of yeast opens the structure of the four-way DNA junction

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=110722

28 July 2018

Retroviral integrases and their cousins

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=110722

28 July 2018

Holliday junction resolvases encoded by homologous rusA genes in Escherichia coli K-12 and phage 82.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=110722

28 July 2018

Resolution of Holliday junctions by eukaryotic DNA topoisomerase I

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=110722

28 July 2018

Crystal structure of Citrobacter freundii restriction endonuclease Cfr10I at 2.15 A resolution

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=110722

28 July 2018

The crystal structure of EcoRV endonuclease and of its complexes with cognate and non-cognate DNA fragments

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=110722

28 July 2018

Prediction of protein secondary structure at better than 70% accuracy

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=110722

28 July 2018

Molecular cloning and expression of a novel hydroxymethylcytosine-specific restriction enzyme (PvuRts1I) modulated by glucosylation of DNA.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=110722

28 July 2018

Biochemistry of homologous recombination in Escherichia coli

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=110722

28 July 2018

Branch migration of Holliday junctions: identification of RecG protein as a junction specific DNA helicase

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=110722

28 July 2018

Atomic structure of the RuvC resolvase: a holliday junction-specific endonuclease from E. coli

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=110722

28 July 2018

Self-splicing group I and group II introns encode homologous (putative) DNA endonucleases of a new family

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=110722

28 July 2018

Amino acid sequence motif of group I intron endonucleases is conserved in open reading frames of group II introns

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=110722

28 July 2018

Recombining the structures of HIV integrase, RuvC and RNase H.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=110722

28 July 2018

Crystal structure of PvuII endonuclease reveals extensive structural homologies to EcoRV

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=110722

28 July 2018

Structure of the bacteriophage Mu transposase core: a common structural motif for DNA transposition and retroviral integration

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=110722

28 July 2018

Refinement of Eco RI endonuclease crystal structure: a revised protein chain tracing

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=110722

28 July 2018

A gene required for very short patch repair in Escherichia coli is adjacent to the DNA cytosine methylase gene

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=110722

28 July 2018

A workbench for multiple alignment construction and analysis

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=110722

28 July 2018

In vitro resolution of poxvirus replicative intermediates into linear minichromosomes with hairpin termini by a virally induced Holliday junction endonuclease

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=110722

28 July 2018

Escherichia coli RuvC protein is an endonuclease that resolves the Holliday structure

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=110722

28 July 2018

Characterization and expression of the Escherichia coli Mrr restriction system

1 reference

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28 July 2018

Enzymes and molecular mechanisms of genetic recombination

1 reference

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28 July 2018

An ATPase domain common to prokaryotic cell cycle proteins, sugar kinases, actin, and hsp70 heat shock proteins

1 reference

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28 July 2018

Bacterial-type DNA holliday junction resolvases in eukaryotic viruses

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=110722

25 November 2018

RuvAB-mediated branch migration does not involve extensive DNA opening within the RuvB hexamer.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=110722

25 November 2018

Phylogeny of the restriction endonuclease-like superfamily inferred from comparison of protein structures

1 reference

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25 November 2018

Recombinational repair of DNA damage in Escherichia coli and bacteriophage lambda

1 reference

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25 November 2018

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1 reference

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25 November 2018

Conserved domains in DNA repair proteins and evolution of repair systems

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=110722

25 November 2018

Identification of three aspartic acid residues essential for catalysis by the RusA holliday junction resolvase.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=110722

25 November 2018

LlaFI, a type III restriction and modification system in Lactococcus lactis

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=110722

25 November 2018

Dna2 of Saccharomyces cerevisiae possesses a single-stranded DNA-specific endonuclease activity that is able to act on double-stranded DNA in the presence of ATP.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=110722

25 November 2018

Crystal structure of restriction endonuclease BglI bound to its interrupted DNA recognition sequence

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=110722

25 November 2018

Holliday junction resolvase in Schizosaccharomyces pombe has identical endonuclease activity to the CCE1 homologue YDC2.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=110722

25 November 2018

A minimal gene set for cellular life derived by comparison of complete bacterial genomes

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=110722

25 November 2018

Evidence for lateral transfer and recombination in OspC variation in Lyme disease Borrelia.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=110722

25 November 2018

Identification of four acidic amino acids that constitute the catalytic center of the RuvC Holliday junction resolvase.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=110722

25 November 2018

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1 reference

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25 November 2018

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1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=110722

25 November 2018

A single nuclease active site of the Escherichia coli RecBCD enzyme catalyzes single-stranded DNA degradation in both directions

1 reference

https://pubmed.ncbi.nlm.nih.gov/10982859

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

The junction-resolving enzyme T7 endonuclease I: quaternary structure and interaction with DNA

1 reference

https://pubmed.ncbi.nlm.nih.gov/10982859

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

A new Holliday junction resolving enzyme from Schizosaccharomyces pombe that is homologous to CCE1 from Saccharomyces cerevisiae

1 reference

https://pubmed.ncbi.nlm.nih.gov/10982859

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

The vsr gene product of E. coli K-12 is a strand- and sequence-specific DNA mismatch endonuclease

1 reference

https://pubmed.ncbi.nlm.nih.gov/10982859

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

The Structure-selectivity and Sequence-preference of the Junction-resolving Enzyme CCE1 ofSaccharomyces cerevisiae

1 reference

https://pubmed.ncbi.nlm.nih.gov/10982859

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Identification of the nuclease active site in the multifunctional RecBCD enzyme by creation of a chimeric enzyme

1 reference

https://pubmed.ncbi.nlm.nih.gov/10982859

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Non-orthologous gene displacement

1 reference

https://pubmed.ncbi.nlm.nih.gov/10982859

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

T4 endonuclease VII. Importance of a histidine-aspartate cluster within the zinc-binding domain

1 reference

https://pubmed.ncbi.nlm.nih.gov/10982859

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

A conserved helicase motif of the AddA subunit of the Bacillus subtilis ATP-dependent nuclease (AddAB) is essential for DNA repair and recombination

1 reference

https://pubmed.ncbi.nlm.nih.gov/10982859

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

REBASE - restriction enzymes and methylases

1 reference

https://pubmed.ncbi.nlm.nih.gov/10982859

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Identifiers

10.1093/NAR/28.18.3417

1 reference

Europe PubMed Central

13 September 2017

release_3coqclp755gwteu7fzxh3xb72e

1 reference

https://api.fatcat.wiki/v0/release/3coqclp755gwteu7fzxh3xb72e

24 November 2022

based on heuristic

mapped directly with Wikidata item

1 reference

Europe PubMed Central

13 September 2017

1 reference

Europe PubMed Central

13 September 2017

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