(Q27658059)

1

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Marie C Spong

2

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Kwangho Nam

3

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Gregory L Verdine

Journal of Biological Chemistry

5

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language of work or name

English

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publication date

8 January 2010

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published in

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volume

285

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issue

2

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page(s)

1468-78

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cites work

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

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CHARMM: the biomolecular simulation program

20 March 2017

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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

20 March 2017

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Crystal structures of DNA/RNA repair enzymes AlkB and ABH2 bound to dsDNA

20 March 2017

1 reference

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

20 March 2017

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DNA lesion recognition by the bacterial repair enzyme MutM

20 March 2017

1 reference

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Structural insights into lesion recognition and repair by the bacterial 8-oxoguanine DNA glycosylase MutM

20 March 2017

1 reference

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Structure of a covalently trapped catalytic complex of HIV-1 reverse transcriptase: implications for drug resistance

20 March 2017

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Instability and decay of the primary structure of DNA

20 March 2017

1 reference

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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=2801272

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

20 March 2017

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Coot: model-building tools for molecular graphics

20 March 2017

1 reference

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PRODRG: a tool for high-throughput crystallography of protein-ligand complexes

20 March 2017

1 reference

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PHENIX: building new software for automated crystallographic structure determination

20 March 2017

2 references

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2801272

20 March 2017

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

21 January 2018

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20 March 2017

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Assessment of phase accuracy by cross validation: the free R value. Methods and applications

20 March 2017

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

7 April 2017

1 reference

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7 April 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=2801272

FASTDXL: a generalized screen to trap disulfide-stabilized complexes for use in structural studies

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2801272

The intricate structural chemistry of base excision repair machinery: implications for DNA damage recognition, removal, and repair.

29 September 2017

1 reference

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A nucleobase lesion remodels the interaction of its normal neighbor in a DNA glycosylase 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=2801272

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

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2801272

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=2801272

Structure of a repair enzyme interrogating undamaged DNA elucidates recognition of damaged DNA.

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2801272

Polymorphic variation in hOGG1 and risk of cancer: a review of the functional and epidemiologic literature

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2801272

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

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2801272

Oxidative damage to DNA: formation, measurement and biochemical features.

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2801272

Covalent trapping of protein-DNA complexes

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2801272

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=2801272

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=2801272

Substrate specificity of Fpg protein. Recognition and cleavage of oxidatively damaged DNA.

2 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2801272

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

2 June 2018

1 reference

https://api.crossref.org/works/10.1074%2FJBC.M109.069799

Processing of X-ray diffraction data collected in oscillation mode

21 January 2018

1 reference

https://api.crossref.org/works/10.1074%2FJBC.M109.069799

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

21 January 2018

1 reference

https://api.crossref.org/works/10.1074%2FJBC.M109.069799

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

21 January 2018

1 reference

https://api.crossref.org/works/10.1074%2FJBC.M109.069799

Comparison of simple potential functions for simulating liquid water

21 January 2018

1 reference

https://api.crossref.org/works/10.1074%2FJBC.M109.069799

Improved treatment of the protein backbone in empirical force fields.

21 January 2018

1 reference

https://api.crossref.org/works/10.1074%2FJBC.M109.069799

How Do DNA Repair Proteins Locate Potential Base Lesions? A Chemical Crosslinking Method to Investigate O6-Alkylguanine-DNA Alkyltransferases

21 January 2018

1 reference

https://api.crossref.org/works/10.1074%2FJBC.M109.069799

Substrate specificity of Fpg (MutM) and hOGG1, two repair glycosylases

21 January 2018

1 reference

https://api.crossref.org/works/10.1074%2FJBC.M109.069799

First principles calculations of the tautomers and pK(a) values of 8-oxoguanine: implications for mutagenicity and repair

21 January 2018

1 reference

https://api.crossref.org/works/10.1074%2FJBC.M109.069799

PROCHECK: a program to check the stereochemical quality of protein structures

21 January 2018

1 reference

https://api.crossref.org/works/10.1074%2FJBC.M109.069799

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

21 January 2018

1 reference

https://api.crossref.org/works/10.1074%2FJBC.M109.069799

Molecular dynamics simulations at constant pressure and/or temperature

21 January 2018

1 reference

https://api.crossref.org/works/10.1074%2FJBC.M109.069799

Molecular dynamics with coupling to an external bath

21 January 2018

1 reference

https://api.crossref.org/works/10.1074%2FJBC.M109.069799

Free R value: cross-validation in crystallography

21 January 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2801272

High base pair opening rates in tracts of GC base pairs

27 November 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/19889642