Incorrect nucleotide insertion at the active site of a G:A mismatch catalyzed by DNA polymerase beta (Q36557917)

14 August 2017

Incorrect nucleotide insertion at the active site of a G:A mismatch catalyzed by DNA polymerase beta (English)

1 reference

14 August 2017

Ping Lin

1

1 reference

14 August 2017

Vinod K Batra

2

1 reference

14 August 2017

Lars C Pedersen

3

1 reference

14 August 2017

William A Beard

4

1 reference

14 August 2017

Samuel H Wilson

5

1 reference

14 August 2017

Lee G Pedersen

6

1 reference

14 August 2017

language of work or name

English

0 references

publication date

7 April 2008

1 reference

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

14 August 2017

1 reference

14 August 2017

105

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14 August 2017

15

1 reference

14 August 2017

5670-5674

1 reference

QM/MM Minimum Free Energy Path: Methodology and Application to Triosephosphate Isomerase

14 August 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2311328

Structures of DNA Polymerase β with Active-Site Mismatches Suggest a Transient Abasic Site Intermediate during Misincorporation

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2311328

Two proton transfers in the transition state for nucleotidyl transfer catalyzed by RNA- and DNA-dependent RNA and DNA polymerases

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2311328

Regulation of DNA repair fidelity by molecular checkpoints: "gates" in DNA polymerase beta's substrate selection

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2311328

Energy analysis of chemistry for correct insertion by DNA polymerase beta

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2311328

Magnesium-induced assembly of a complete DNA polymerase catalytic complex.

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2311328

Structure and mechanism of DNA polymerase Beta.

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2311328

Mechanistic comparison of high-fidelity and error-prone DNA polymerases and ligases involved in DNA repair

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2311328

Nucleoside 5'-triphosphates: self-association, acid-base, and metal ion-binding properties in solution

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2311328

Fidelity of Dpo4: effect of metal ions, nucleotide selection and pyrophosphorolysis

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2311328

Computer simulations of protein functions: searching for the molecular origin of the replication fidelity of DNA polymerases

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2311328

DNA polymerase fidelity: kinetics, structure, and checkpoints

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2311328

Development and testing of a general amber force field

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2311328

Efficiency of correct nucleotide insertion governs DNA polymerase fidelity.

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2311328

30 September 2017

DNA replication fidelity

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2311328

Development of the Colle-Salvetti correlation-energy formula into a functional of the electron density

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2311328

DNA polymerase beta: structure-fidelity relationship from Pre-steady-state kinetic analyses of all possible correct and incorrect base pairs for wild type and R283A mutant

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2311328

Characterization of the active site of DNA polymerase β by molecular dynamics and quantum chemical calculation

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2311328

Structural and functional insights provided by crystal structures of DNA polymerases and their substrate complexes.

28 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2311328

DNA polymerase beta: effects of gapped DNA substrates on dNTP specificity, fidelity, processivity and conformational changes

28 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2311328

Use of viscogens, dNTPalphaS, and rhodium(III) as probes in stopped-flow experiments to obtain new evidence for the mechanism of catalysis by DNA polymerase beta.

28 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2311328

Ab initio QM/MM study shows there is no general acid in the reaction catalyzed by 4-oxalocrotonate tautomerase

21 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2311328

Geometry optimization with QM/MM, ONIOM, and other combined methods. I. Microiterations and constraints.

21 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2311328

Loss of DNA polymerase beta stacking interactions with templating purines, but not pyrimidines, alters catalytic efficiency and fidelity.

21 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2311328

DNA polymerase beta: analysis of the contributions of tyrosine-271 and asparagine-279 to substrate specificity and fidelity of DNA replication by pre-steady-state kinetics

21 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2311328

Comparison of simple potential functions for simulating liquid water

21 September 2018

1 reference

Crossref

https://api.crossref.org/works/10.1073%2FPNAS.0801257105

Particle mesh Ewald: An N⋅log(N) method for Ewald sums in large systems

21 January 2018

1 reference

Crossref

https://api.crossref.org/works/10.1073%2FPNAS.0801257105

Density-functional thermochemistry. III. The role of exact exchange

21 January 2018

1 reference

Crossref

https://api.crossref.org/works/10.1073%2FPNAS.0801257105

DNA polymerase beta: contributions of template-positioning and dNTP triphosphate-binding residues to catalysis and fidelity

21 January 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/18391201

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Structural insights into DNA polymerase beta deterrents for misincorporation support an induced-fit mechanism for fidelity

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/18391201

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

A new paradigm for DNA polymerase specificity

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/18391201

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1073/PNAS.0801257105

1 reference

14 August 2017

0 references

1 reference

14 August 2017

PubMed publication ID

18391201

1 reference