Encounter and extrusion of an intrahelical lesion by a DNA repair enzyme (Q27658654)

6

0 references

Anirban Banerjee

object named as

Anirban Banerjee

4

0 references

Sao Jiralerspong

object named as

Sao Jiralerspong

5

0 references

author name string

Yan Qi

1

0 references

Marie C Spong

2

0 references

Kwangho Nam

3

0 references

Gregory L Verdine

Structure of the E. coli DNA Glycosylase AlkA Bound to the Ends of Duplex DNA: A System for the Structure Determination of Lesion-Containing DNA

7

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language of work or name

English

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publication date

10 December 2009

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published in

Nature

0 references

volume

462

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page(s)

762-6

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issue

7274

0 references

cites work

1 reference

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Enzymatic capture of an extrahelical thymine in the search for uracil in DNA

20 March 2017

1 reference

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DNA lesion recognition by the bacterial repair enzyme MutM

20 March 2017

1 reference

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Structural basis for recognition and repair of the endogenous mutagen 8-oxoguanine in DNA

20 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2951314

Instability and decay of the primary structure of DNA

20 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2951314

X-ray structure of a DNA decamer containing 7,8-dihydro-8-oxoguanine

20 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2951314

All-atom empirical potential for molecular modeling and dynamics studies of proteins

20 March 2017

1 reference

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Insertion of specific bases during DNA synthesis past the oxidation-damaged base 8-oxodG

20 March 2017

1 reference

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A two-step nucleotide-flipping mechanism enables kinetic discrimination of DNA lesions by AGT

7 April 2017

1 reference

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29 September 2017

Base excision DNA repair

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2951314

A base-excision DNA-repair protein finds intrahelical lesion bases by fast sliding in contact with DNA.

29 September 2017

1 reference

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Poor base stacking at DNA lesions may initiate recognition by many repair proteins

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2951314

Structure of a DNA glycosylase searching for 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=2951314

29 September 2017

Base excision repair.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2951314

Repair and genetic consequences of endogenous DNA base damage in mammalian cells

29 September 2017

1 reference

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Error-prone replication of oxidatively damaged DNA by a high-fidelity DNA polymerase

29 September 2017

1 reference

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Energetics of lesion recognition by a DNA repair protein: thermodynamic characterization of formamidopyrimidine-glycosylase (Fpg) interactions with damaged DNA duplexes.

29 September 2017

1 reference

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Thermodynamic, kinetic, and structural basis for recognition and repair of 8-oxoguanine in DNA by Fpg protein from Escherichia coli.

29 September 2017

1 reference

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A mutator phenotype in cancer.

29 September 2017

1 reference

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Forced unfolding of fibronectin type 3 modules: an analysis by biased molecular dynamics simulations

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2951314

Mutagenesis by 8-oxoguanine: an enemy within

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2951314

NMR studies of a DNA containing 8-hydroxydeoxyguanosine

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2951314

NMR imino proton exchange experiments on duplex DNA primarily monitor the opening of purine bases.

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2951314

Dynamic behavior of DNA base pairs containing 8-oxoguanine

2 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2951314

Free energy and structural pathways of base flipping in a DNA GCGC containing sequence.

27 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2951314

Stopped-flow kinetic studies of the interaction between Escherichia coli Fpg protein and DNA substrates

27 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2951314

Influence of the oxidatively damaged adduct 8-oxodeoxyguanosine on the conformation, energetics, and thermodynamic stability of a DNA duplex.

27 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2951314

Bias annealing: a method for obtaining transition paths de novo

27 November 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/20010681

12 December 2020

inferred from PubMed ID database lookup

Simulation of conformational transitions by the restricted perturbation-targeted molecular dynamics method

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/20010681

12 December 2020

inferred from PubMed ID database lookup

Comparison of simple potential functions for simulating liquid water

1 reference

https://api.crossref.org/works/10.1038%2FNATURE08561

7 January 2021

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

1 reference

https://api.crossref.org/works/10.1038%2FNATURE08561

7 January 2021

Processing of X-ray diffraction data collected in oscillation mode

1 reference

https://api.crossref.org/works/10.1038%2FNATURE08561

7 January 2021

Crystallography & NMR System: A New Software Suite for Macromolecular Structure Determination

1 reference

https://api.crossref.org/works/10.1038%2FNATURE08561

7 January 2021

Coot: model-building tools for molecular graphics

1 reference

https://api.crossref.org/works/10.1038%2FNATURE08561

7 January 2021

Use of TLS parameters to model anisotropic displacements in macromolecular refinement

1 reference

https://api.crossref.org/works/10.1038%2FNATURE08561

7 January 2021

Optimal description of a protein structure in terms of multiple groups undergoing TLS motion

1 reference

https://api.crossref.org/works/10.1038%2FNATURE08561

7 January 2021

CHARMM: A program for macromolecular energy, minimization, and dynamics calculations

1 reference

https://api.crossref.org/works/10.1038%2FNATURE08561

7 January 2021

Numerical integration of the cartesian equations of motion of a system with constraints: molecular dynamics of n-alkanes

1 reference

https://api.crossref.org/works/10.1038%2FNATURE08561

7 January 2021

Molecular dynamics with coupling to an external bath

1 reference

https://api.crossref.org/works/10.1038%2FNATURE08561

7 January 2021

THE weighted histogram analysis method for free-energy calculations on biomolecules. I. The method

1 reference

https://api.crossref.org/works/10.1038%2FNATURE08561

7 January 2021

Implementation of an adaptive umbrella sampling method for the calculation of multidimensional potential of mean force of chemical reactions in solution

1 reference

https://api.crossref.org/works/10.1038%2FNATURE08561

7 January 2021

Identifiers

DOI

10.1038/NATURE08561

1 reference

Dimensions Publication ID

3465617

1042769923

0 references

Fatcat ID

release_rcik6wzn4zcmfftei5h6pixi2q

0 references

3465617

1 reference

1 reference

1 reference