Structure and mechanism of DNA polymerase β (Q28237870)

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:24717170%20AND%20SRC:MED&resulttype=core&format=json

13 June 2020

author name string

William A Beard

series ordinal

1

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:24717170%20AND%20SRC:MED&resulttype=core&format=json

13 June 2020

language of work or name

English

0 references

publication date

6 May 2014

0 references

published in

Biochemistry

1 reference

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13 June 2020

volume

53

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:24717170%20AND%20SRC:MED&resulttype=core&format=json

13 June 2020

page(s)

2768-2780

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:24717170%20AND%20SRC:MED&resulttype=core&format=json

13 June 2020

issue

17

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:24717170%20AND%20SRC:MED&resulttype=core&format=json

Structure-function studies of DNA polymerase λ

13 June 2020

cites work

1 reference

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Observing a DNA Polymerase Choose Right from Wrong

20 March 2017

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Structural Changes in the Hydrophobic Hinge Region Adversely Affect the Activity and Fidelity of the I260Q Mutator DNA Polymerase β

20 March 2017

1 reference

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Amino Acid Substitution in the Active Site of DNA Polymerase β Explains the Energy Barrier of the Nucleotidyl Transfer Reaction

20 March 2017

1 reference

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DNA polymerase minor groove interactions modulate mutagenic bypass of a templating 8-oxoguanine lesion

20 March 2017

1 reference

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Structures of dNTP Intermediate States during DNA Polymerase Active Site Assembly

20 March 2017

1 reference

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Watching DNA polymerase η make a phosphodiester bond

20 March 2017

1 reference

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Unfavorable Electrostatic and Steric Interactions in DNA Polymerase β E295K Mutant Interfere with the Enzyme’s Pathway

20 March 2017

1 reference

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Base excision repair and cancer

20 March 2017

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Binary complex crystal structure of DNA polymerase reveals multiple conformations of the templating 8-oxoguanine lesion

20 March 2017

1 reference

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Molecular Insights into DNA Polymerase Deterrents for Ribonucleotide Insertion

20 March 2017

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Unlocking the sugar "steric gate" of DNA polymerases

20 March 2017

1 reference

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Mutagenic conformation of 8-oxo-7,8-dihydro-2′-dGTP in the confines of a DNA polymerase active site

20 March 2017

1 reference

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DNA Polymerase Substrate Specificity: SIDE CHAIN MODULATION OF THE"A-RULE"

20 March 2017

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α,β-Difluoromethylene Deoxynucleoside 5′-Triphosphates: A Convenient Synthesis of Useful Probes for DNA Polymerase β Structure and Function

20 March 2017

1 reference

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

20 March 2017

1 reference

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Modifying the beta,gamma leaving-group bridging oxygen alters nucleotide incorporation efficiency, fidelity, and the catalytic mechanism of DNA polymerase beta

20 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4018062

Application of a Theory of Enzyme Specificity to Protein Synthesis

20 March 2017

1 reference

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UCSF Chimera--a visualization system for exploratory research and analysis

20 March 2017

1 reference

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Structure of DNA polymerase beta with the mutagenic DNA lesion 8-oxodeoxyguanine reveals structural insights into its coding potential

20 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4018062

Insight into the catalytic mechanism of DNA polymerase beta: structures of intermediate complexes

20 March 2017

1 reference

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Unblocking of chain-terminated primer by HIV-1 reverse transcriptase through a nucleotide-dependent mechanism

20 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4018062

Crystal structures of human DNA polymerase beta complexed with gapped and nicked DNA: evidence for an induced fit mechanism

20 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4018062

Crystal structure of a DNA duplex containing 8-hydroxydeoxyguanine-adenine base pairs

20 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4018062

Crystal structure of rat DNA polymerase beta: evidence for a common polymerase mechanism

20 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4018062

Structures of ternary complexes of rat DNA polymerase beta, a DNA template-primer, and ddCTP

20 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4018062

Rate of depurination of native deoxyribonucleic acid

20 March 2017

1 reference

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Structure of large fragment of Escherichia coli DNA polymerase I complexed with dTMP

20 March 2017

1 reference

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An overview of Y-Family DNA polymerases and a case study of human DNA polymerase η

20 March 2017

1 reference

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20 March 2017

DNA replication fidelity

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RB69 DNA polymerase structure, kinetics, and fidelity

7 April 2017

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Transition state in DNA polymerase β catalysis: rate-limiting chemistry altered by base-pair configuration.

29 September 2017

1 reference

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Structural comparison of DNA polymerase architecture suggests a nucleotide gateway to the polymerase active site

29 September 2017

1 reference

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Perspective: pre-chemistry conformational changes in DNA polymerase mechanisms

29 September 2017

1 reference

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Pol β associated complex and base excision repair factors in mouse fibroblasts.

29 September 2017

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Colon cancer-associated DNA polymerase β variant induces genomic instability and cellular transformation

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4018062

Metal-induced DNA translocation leads to DNA polymerase conformational activation

29 September 2017

1 reference

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Substrate channeling in mammalian base excision repair pathways: passing the baton

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4018062

DNA polymerase beta ribonucleotide discrimination: insertion, misinsertion, extension, and coding.

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4018062

Role of induced fit in enzyme specificity: a molecular forward/reverse switch

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4018062

Solution structures of 2 : 1 and 1 : 1 DNA polymerase-DNA complexes probed by ultracentrifugation and small-angle X-ray scattering

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4018062

A novel mechanism of selectivity against AZT by the human mitochondrial DNA polymerase

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4018062

The X family portrait: structural insights into biological functions of X family polymerases.

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4018062

A unified kinetic mechanism applicable to multiple DNA polymerases.

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4018062

Energy analysis of chemistry for correct insertion by DNA polymerase beta

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4018062

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

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4018062

Structure and mechanism of DNA polymerase Beta.

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4018062

Is base excision repair a tumor suppressor mechanism?

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4018062

DNA polymerase fidelity: kinetics, structure, and checkpoints

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4018062

Structural Insights into the Origins of DNA Polymerase Fidelity

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4018062

Hypersensitivity of DNA polymerase beta null mouse fibroblasts reflects accumulation of cytotoxic repair intermediates from site-specific alkyl DNA lesions

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4018062

Efficiency of correct nucleotide insertion governs DNA polymerase fidelity.

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4018062

Structural design of a eukaryotic DNA repair polymerase: DNA polymerase beta.

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4018062

Mapping of the 5'-2-deoxyribose-5-phosphate lyase active site in DNA polymerase beta by mass spectrometry

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4018062

An open and closed case for all polymerases.

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4018062

Endogenous apurinic/apyrimidinic sites in genomic DNA of mammalian tissues

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4018062

Requirement of mammalian DNA polymerase-beta in base-excision repair.

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4018062

Compilation, alignment, and phylogenetic relationships of DNA polymerases

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4018062

Studies of gapped DNA substrate binding by mammalian DNA polymerase beta. Dependence on 5'-phosphate group

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4018062

Excision of deoxyribose phosphate residues by DNA polymerase beta during DNA repair

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4018062

Comparison between DNA melting thermodynamics and DNA polymerase fidelity

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4018062

Pre-steady-state kinetic analysis of processive DNA replication including complete characterization of an exonuclease-deficient mutant

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4018062

The E295K DNA polymerase beta gastric cancer-associated variant interferes with base excision repair and induces cellular transformation

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4018062

Purification and domain-mapping of mammalian DNA polymerase beta.

2 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4018062

Steady-state kinetics of mouse DNA polymerase beta

2 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4018062

Contribution of the reverse rate of the conformational step to polymerase beta fidelity

2 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4018062

DNA polymerase beta fidelity: halomethylene-modified leaving groups in pre-steady-state kinetic analysis reveal differences at the chemical transition state

27 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4018062

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.

27 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4018062

Influence of DNA structure on DNA polymerase beta active site function: extension of mutagenic DNA intermediates.

27 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4018062

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

27 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4018062

Enzyme-DNA interactions required for efficient nucleotide incorporation and discrimination in human DNA polymerase beta.

27 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4018062

Reexamination of induced fit as a determinant of substrate specificity in enzymatic reactions.

27 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4018062

Characterization of the tryptophan fluorescence and hydrodynamic properties of rat DNA polymerase beta

27 November 2018

1 reference

12 December 2020

Kinetic mechanism of active site assembly and chemical catalysis of DNA polymerase β

1 reference

12 December 2020

Kinetic basis of spontaneous mutation. Misinsertion frequencies, proofreading specificities and cost of proofreading by DNA polymerases of Escherichia coli

1 reference

12 December 2020

Evidence for an imino intermediate in the DNA polymerase beta deoxyribose phosphate excision reaction

1 reference

12 December 2020

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

1 reference

12 December 2020

A new paradigm for DNA polymerase specificity

1 reference

12 December 2020

Identifiers

DOI

10.1021/BI500139H

2 references

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:24717170%20AND%20SRC:MED&resulttype=core&format=json

13 June 2020

1 reference

2 references

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:24717170%20AND%20SRC:MED&resulttype=core&format=json

13 June 2020

2 references