Metal ion-mediated substrate-assisted catalysis in type II restriction endonucleases (Q24654223)

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6 December 2019

title

Metal ion-mediated substrate-assisted catalysis in type II restriction endonucleases (English)

1 reference

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6 December 2019

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6 December 2019

K J Newberry

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6 December 2019

J J Perona

series ordinal

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6 December 2019

language of work or name

English

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publication date

1 November 1998

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Proceedings of the National Academy of Sciences of the United States of America

6 December 2019

published in

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6 December 2019

volume

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6 December 2019

issue

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6 December 2019

page(s)

13489-13494

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Structural principles for the inhibition of the 3'-5' exonuclease activity of Escherichia coli DNA polymerase I by phosphorothioates

6 December 2019

cites work

1 reference

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Conformational transitions and structural deformability of EcoRV endonuclease revealed by crystallographic analysis

7 April 2017

1 reference

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Crystal structures of an NH2-terminal fragment of T4 DNA polymerase and its complexes with single-stranded DNA and with divalent metal ions

7 April 2017

1 reference

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

7 April 2017

1 reference

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Relocating a negative charge in the binding pocket of trypsin

7 April 2017

1 reference

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Structure of PvuII endonuclease with cognate DNA

7 April 2017

1 reference

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Mg2+ binding to the active site of EcoRV endonuclease: a crystallographic study of complexes with substrate and product DNA at 2 A resolution

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=24846

Structure of Bam HI endonuclease bound to DNA: partial folding and unfolding on DNA binding

7 April 2017

1 reference

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Plastic adaptation toward mutations in proteins: structural comparison of thymidylate synthases

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=24846

Reaction mechanism of alkaline phosphatase based on crystal structures. Two-metal ion catalysis

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=24846

Crystallographic R factor refinement by molecular dynamics

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=24846

Structural basis for the 3'-5' exonuclease activity of Escherichia coli DNA polymerase I: a two metal ion mechanism

7 April 2017

2 references

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=24846

7 April 2017

https://api.crossref.org/works/10.1073%2FPNAS.95.23.13489

inferred from DOI database lookup

7 January 2021

based on heuristic

Recognition and cleavage of DNA by 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=24846

The contribution of lysine-36 to catalysis by human myo-inositol monophosphatase

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=24846

Random mutagenesis targeted to the active site of the EcoRV restriction endonuclease

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=24846

Influence of the phosphate backbone on the recognition and hydrolysis of DNA by the EcoRV restriction endonuclease. A study using oligodeoxynucleotide phosphorothioates

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=24846

Probing the indirect readout of the restriction enzyme EcoRV. Mutational analysis of contacts to the DNA backbone

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=24846

Substrate-assisted catalysis in the cleavage of DNA by the EcoRI and EcoRV restriction enzymes

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=24846

Rapid reaction analysis of the catalytic cycle of the EcoRV restriction endonuclease.

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=24846

Structure and function of restriction endonucleases

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=24846

Evidence for substrate-assisted catalysis in the DNA cleavage of several restriction endonucleases

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=24846

Structural Aspects of Metal Liganding to Functional Groups in Proteins

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=24846

On the catalytic mechanism of EcoRI and EcoRV. A detailed proposal based on biochemical results, structural data and molecular modelling

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=24846

Stereochemical outcome of the hydrolysis reaction catalyzed by the EcoRV restriction endonuclease

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=24846

Divalent metal ions at the active sites of the EcoRV and EcoRI restriction endonucleases.

30 May 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.95.23.13489

Specific DNA recognition by EcoRV restriction endonuclease induced by calcium ions.

21 January 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.95.23.13489

Maintaining protein stability

21 January 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.95.23.13489

New parameters for the refinement of nucleic acid-containing structures

21 January 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.95.23.13489

Does the Restriction EndonucleaseEcoRV Employ a Two-Metal-Ion Mechanism for DNA Cleavage?†

21 January 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.95.23.13489

The cleavage site for the restriction endonuclease EcoRV is 5'-GAT/ATC-3'

21 January 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.95.23.13489

Application of phosphate-backbone-modified oligonucleotides in the studies on EcoRI endonuclease mechanism of action

21 January 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.95.23.13489

A site-directed mutagenesis study to identify amino acid residues involved in the catalytic function of the restriction endonuclease EcoRV

21 January 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.95.23.13489

Evidence for the role of solvated metal hydroxide in the hammerhead cleavage mechanism

21 January 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.95.23.13489

Free energy calculations by computer simulation

21 January 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.95.23.13489

21 January 2018

Identifiers

DOI

10.1073/PNAS.95.23.13489

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:9811827%20AND%20SRC:MED&resulttype=core&format=json

6 December 2019

0 references

1 reference

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6 December 2019

PubMed publication ID

9811827

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:9811827%20AND%20SRC:MED&resulttype=core&format=json