Sequential side-chain residue motions transform the binary into the ternary state of DNA polymerase lambda (Q35095792)

6 August 2017

title

Sequential side-chain residue motions transform the binary into the ternary state of DNA polymerase lambda (English)

1 reference

6 August 2017

3

Tamar Schlick

1 reference

6 August 2017

Meredith C Foley

1

1 reference

6 August 2017

Karunesh Arora

series ordinal

2

1 reference

6 August 2017

language of work or name

English

0 references

publication date

18 August 2006

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6 August 2017

number of pages

14

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inferred from page(s)

published in

Biophysical Journal

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6 August 2017

volume

91

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6 August 2017

issue

9

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6 August 2017

page(s)

3182-3195

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

6 August 2017

cites work

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9 July 2018

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9 July 2018

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9 July 2018

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In silico studies of the African swine fever virus DNA polymerase X support an induced-fit mechanism

9 July 2018

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9 July 2018

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Mismatch-induced conformational distortions in polymerase beta support an induced-fit mechanism for fidelity.

9 July 2018

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9 July 2018

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A closed conformation for the Pol lambda catalytic cycle.

9 July 2018

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9 July 2018

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Critical role of magnesium ions in DNA polymerase beta's closing and active site assembly

9 July 2018

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9 July 2018

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Orchestration of cooperative events in DNA synthesis and repair mechanism unraveled by transition path sampling of DNA polymerase beta's closing

9 July 2018

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A structural solution for the DNA polymerase lambda-dependent repair of DNA gaps with minimal homology

9 July 2018

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9 July 2018

DNA replication fidelity

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Mutagenesis of human DNA polymerase lambda: essential roles of Tyr505 and Phe506 for both DNA polymerase and terminal transferase activities

9 July 2018

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Efficiency of correct nucleotide insertion governs DNA polymerase fidelity.

9 July 2018

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Polymerase beta simulations suggest that Arg258 rotation is a slow step rather than large subdomain motions per se.

9 July 2018

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Crystal structures of a template-independent DNA polymerase: murine terminal deoxynucleotidyltransferase

9 July 2018

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Identification of an intrinsic 5'-deoxyribose-5-phosphate lyase activity in human DNA polymerase lambda: a possible role in base excision repair

9 July 2018

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DNA structure and aspartate 276 influence nucleotide binding to human DNA polymerase beta. Implication for the identity of the rate-limiting conformational change

9 July 2018

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DNA polymerases: structural diversity and common mechanisms

9 July 2018

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Selective inhibition of HIV-1 reverse transcriptase by an antiviral inhibitor, (R)-9-(2-Phosphonylmethoxypropyl)adenine

9 July 2018

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

9 July 2018

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A mechanism for all polymerases

9 July 2018

1 reference

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

9 July 2018

1 reference

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A superfamily of conserved domains in DNA damage-responsive cell cycle checkpoint proteins

9 July 2018

1 reference

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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

9 July 2018

1 reference

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From BRCA1 to RAP1: a widespread BRCT module closely associated with DNA repair

9 July 2018

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VMD: visual molecular dynamics

9 July 2018

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DNA polymerase beta: pre-steady-state kinetic analysis and roles of arginine-283 in catalysis and fidelity.

9 July 2018

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Kinetic mechanism of DNA polymerase I (Klenow).

9 July 2018

1 reference

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An induced-fit kinetic mechanism for DNA replication fidelity: direct measurement by single-turnover kinetics

9 July 2018

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

9 July 2018

1 reference

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Kinetic mechanism of DNA polymerase I(Klenow fragment): identification of a second conformational change and evaluation of the internal equilibrium constant

9 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1614482

Conformational transition pathway of polymerase beta/DNA upon binding correct incoming substrate

9 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1614482

Subtle but variable conformational rearrangements in the replication cycle of Sulfolobus solfataricus P2 DNA polymerase IV (Dpo4) may accommodate lesion bypass

27 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1614482

Fidelity discrimination in DNA polymerase beta: differing closing profiles for a mismatched (G:A) versus matched (G:C) base pair

27 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1614482

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

27 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1614482

The frameshift infidelity of human DNA polymerase lambda. Implications for function.

27 September 2018

1 reference

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A new program for optimizing periodic boundary models of solvated biomolecules (PBCAID).

27 September 2018

1 reference

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DNA polymerase lambda, a novel DNA repair enzyme in human cells.

27 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1614482

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

27 September 2018

1 reference

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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

27 September 2018

1 reference

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

27 September 2018

1 reference

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The nucleotide analog 2-aminopurine as a spectroscopic probe of nucleotide incorporation by the Klenow fragment of Escherichia coli polymerase I and bacteriophage T4 DNA polymerase.

27 September 2018

1 reference

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Focusing of electric fields in the active site of Cu-Zn superoxide dismutase: effects of ionic strength and amino-acid modification

27 September 2018

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Y265H mutator mutant of DNA polymerase beta. Proper teometric alignment is critical for fidelity

27 September 2018

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12 December 2020

Up-regulation of the fidelity of human DNA polymerase lambda by its non-enzymatic proline-rich domain

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12 December 2020

Kinetic characterization of the polymerase and exonuclease activities of the gene 43 protein of bacteriophage T4

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12 December 2020

DNA polymerase beta: multiple conformational changes in the mechanism of catalysis

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12 December 2020

Base substitution specificity of DNA polymerase beta depends on interactions in the DNA minor groove

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12 December 2020

Minor groove interactions at the DNA polymerase beta active site modulate single-base deletion error rates

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12 December 2020

Zinc binding in proteins and solution: a simple but accurate nonbonded representation

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12 December 2020

Involvement of phenylalanine 272 of DNA polymerase beta in discriminating between correct and incorrect deoxynucleoside triphosphates

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12 December 2020

10.1529/BIOPHYSJ.106.092080

Identifiers

DOI

1 reference

6 August 2017

1 reference

6 August 2017

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