Author results

1ONM
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SOLUTION STRUCTURE OF A DNA DUPLEX CONTAINING A:G MISMATCH. D(GCTTCAGTCGT):D(ACGACGGAAGC)
Descriptor:5'-D(*GP*CP*TP*TP*CP*AP*GP*TP*CP*GP*T)-3', 5'-D(*AP*CP*GP*AP*CP*GP*GP*AP*AP*GP*C)-3'
Authors:Sanchez, A.M., Volk, D.E., Gorenstein, D.G., Lloyd, R.S.
Deposit date:2003-02-28
Release date:2003-11-04
Last modified:2011-07-13
Method:SOLUTION NMR
Cite:Initiation of repair of A/G mismatches is modulated by sequence context
DNA REPAIR, 2, 2003
1U6C
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THE NMR-DERIVED SOLUTION STRUCTURE OF THE (2S,3S)-N6-(2,3,4-TRIHYDROXYBUTYL)-2'-DEOXYADENOSYL DNA ADDUCT OF BUTADIENE DIOL EPOXIDE
Descriptor:(2S,3S)-N6-(2,3,4-trihydroxybutyl)-2'-deoxyadenosyl DNA adduct of butadiene diol epoxide
Authors:Scholdberg, T.A., Nechev, L.N., Merritt, W.K., Harris, T.M., Harris, C.M., Lloyd, R.S., Stone, M.P.
Deposit date:2004-07-29
Release date:2004-08-17
Last modified:2011-07-13
Method:SOLUTION NMR
Cite:Structure of a site specific major groove (2S,3S)-N6-(2,3,4-trihydroxybutyl)-2'-deoxyadenosyl DNA adduct of butadiene diol epoxide.
Chem.Res.Toxicol., 17, 2004
1U6N
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SOLUTION STRUCTURE OF AN OLIGODEOXYNUCLEOTIDE CONTAINING A BUTADIENE DERIVED N1 B-HYDROXYALKYL ADDUCT ON DEOXYINOSINE IN THE HUMAN N-RAS CODON 61 SEQUENCE
Descriptor:5'-D(*CP*GP*GP*AP*CP*(2BD)P*AP*GP*AP*AP*G)-3', 5'-D(*CP*TP*TP*CP*TP*TP*GP*TP*CP*CP*G)-3'
Authors:Scholdberg, T.A., Merritt, W.K., Dean, S.M., Kowalcyzk, A., Harris, T.M., Harris, C.M., Lloyd, R.S., Stone, M.P.
Deposit date:2004-07-30
Release date:2004-08-10
Last modified:2011-07-13
Method:SOLUTION NMR
Cite:Structure of an Oligodeoxynucleotide Containing a Butadiene Oxide-Derived N1 Beta-Hydroxyalkyl Deoxyinosine Adduct in the Human N-ras Codon 61 Sequence.
Biochemistry, 44, 2005
1U6O
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MISPAIRING OF A SITE-SPECIFIC MAJOR GROOVE (2S,3S)-N6-(2,3,4-TRIHYDROXYBUTYL)-2-DEOXYADENOSYL DNA ADDUCT OF BUTADIENE DIOL EPOXIDE WITH DEOXYGUANOSINE: FORMATION OF A DA(ANTI)DG(ANTI) PAIRING INTERACTION
Descriptor:5'-D(*CP*GP*GP*AP*CP*(2BU)P*AP*GP*AP*AP*G)-3', 5'-D(*CP*TP*TP*CP*TP*GP*GP*TP*CP*CP*G)-3'
Authors:Scholdberg, T.A., Nechev, L.N., Merritt, W.K., Harris, T.M., Harris, C.M., Lloyd, R.S., Stone, M.P.
Deposit date:2004-07-30
Release date:2004-08-10
Last modified:2011-07-13
Method:SOLUTION NMR
Cite:Mispairing of a Site Specific Major Groove (2S,3S)-N6-(2,3,4-Trihydroxybutyl)-2'-deoxyadenosyl DNA Adduct of Butadiene Diol Epoxide with Deoxyguanosine: Formation of a dA(anti)dG(anti) Pairing Interaction.
CHEM.RES.TOXICOL., 18, 2005
2FCC
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CRYSTAL STRUCTURE OF T4 PYRIMIDINE DIMER GLYCOSYLASE (T4-PDG) COVALENTLY COMPLEXED WITH A DNA SUBSTRATE CONTAINING ABASIC SITE
Descriptor:DNA (5'-D(*CP*CP*AP*GP*GP*AP*(PED)P*GP*AP*AP*GP*CP*C)-3'), DNA (5'-D(*GP*GP*CP*(BRU)P*(BRU)P*CP*AP*(BRU)P*CP*CP*(BRU)P*GP*G)-3'), Endonuclease V, ...
Authors:Golan, G., Zharkov, D.O., Fernandes, A.S., Dodson, M.L., McCullough, A.K., Grollman, A.P., Lloyd, R.S., Shoham, G.
Deposit date:2005-12-12
Release date:2006-10-03
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (2.3 Å)
Cite:Structure of T4 Pyrimidine Dimer Glycosylase in a Reduced Imine Covalent Complex with Abasic Site-containing DNA.
J.Mol.Biol., 362, 2006
2K8T
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SOLUTION NMR STRUCTURE OF TRANS-4-HYDROXYNONENAL DERIVED DG ADDUCT OF (6R,8S,11R)-CONFIGURATION OPPOSITE DC
Descriptor:5'-D(*DGP*DCP*DTP*DAP*DGP*DCP*DGP*DAP*DGP*DTP*DCP*DC)-3', 5'-D(*DGP*DGP*DAP*DCP*DTP*DCP*DGP*DCP*DTP*DAP*DGP*DC)-3', (2S,5R)-5-pentyltetrahydrofuran-2-ol
Authors:Huang, H., Wang, H., Qi, N., Lloyd, R.S., Rizzo, C.J., Stone, M.P.
Deposit date:2008-09-23
Release date:2008-11-04
Last modified:2011-07-13
Method:SOLUTION NMR
Cite:The stereochemistry of trans-4-hydroxynonenal-derived exocyclic 1,N2-2'-deoxyguanosine adducts modulates formation of interstrand cross-links in the 5'-CpG-3' sequence.
Biochemistry, 47, 2008
2K8U
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SOLUTION NMR STRUCTURE OF TRANS-4-HYDROXYNONENAL DERIVED DG ADDUCT OF (6S,8R,11S)-CONFIGURATION MATCHED WITH DC
Descriptor:5'-D(*DGP*DCP*DTP*DAP*DGP*DCP*DGP*DAP*DGP*DTP*DCP*DC)-3', 5'-D(*DGP*DGP*DAP*DCP*DTP*DCP*DGP*DCP*DTP*DAP*DGP*DC)-3', (2S,5R)-5-pentyltetrahydrofuran-2-ol
Authors:Huang, H., Wang, H., Qi, N., Lloyd, R.S., Rizzo, C.J., Stone, M.P.
Deposit date:2008-09-23
Release date:2008-11-04
Last modified:2011-07-13
Method:SOLUTION NMR
Cite:The stereochemistry of trans-4-hydroxynonenal-derived exocyclic 1,N2-2'-deoxyguanosine adducts modulates formation of interstrand cross-links in the 5'-CpG-3' sequence.
Biochemistry, 47, 2008
2KAR
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HNE-DG ADDUCT MISMATCHED WITH DA IN ACIDIC SOLUTION
Descriptor:5'-D(*DGP*DCP*DTP*DAP*DGP*DCP*DGP*DAP*DGP*DTP*DCP*DC)-3', 5'-D(*DGP*DGP*DAP*DCP*DTP*DAP*DGP*DCP*DTP*DAP*DGP*DC)-3', (4S)-nonane-1,4-diol
Authors:Huang, H., Wang, H., Lloyd, R.S., Rizzo, C.J., Stone, M.P.
Deposit date:2008-11-13
Release date:2009-05-26
Last modified:2011-07-13
Method:SOLUTION NMR
Cite:Conformational interconversion of the trans-4-hydroxynonenal-derived (6S,8R,11S) 1,N(2)-deoxyguanosine adduct when mismatched with deoxyadenosine in DNA
Chem.Res.Toxicol., 22, 2009
2KAS
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HNE-DG ADDUCT MISMATCHED WITH DA IN BASIC SOLUTION
Descriptor:5'-D(*DGP*DCP*DTP*DAP*DGP*DCP*DGP*DAP*DGP*DTP*DCP*DC)-3', 5'-D(*DGP*DGP*DAP*DCP*DTP*DAP*DGP*DCP*DTP*DAP*DGP*DC)-3', (4S)-nonane-1,4-diol
Authors:Huang, H., Wang, H., Lloyd, R.S., Rizzo, C.J., Stone, M.P.
Deposit date:2008-11-13
Release date:2009-05-26
Last modified:2011-07-13
Method:SOLUTION NMR
Cite:Conformational interconversion of the trans-4-hydroxynonenal-derived (6S,8R,11S) 1,N(2)-deoxyguanosine adduct when mismatched with deoxyadenosine in DNA
Chem.Res.Toxicol., 22, 2009
2KV6
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TETRAPEPTIDE KWKK CONJUGATED TO OLIGONUCLEOTIDE DUPLEX BY A TRIMETHYLENE TETHER
Descriptor:5'-D(*GP*CP*TP*AP*GP*CP*GP*AP*GP*TP*CP*C)-3', 5'-D(*GP*GP*AP*CP*TP*CP*GP*CP*TP*AP*GP*C)-3', KWKK Tetrapeptide
Authors:Huang, H., Kozekov, I.D., Kozekova, A., Rizzo, C.J., McCullough, A., LLoyd, R.S., Stone, M.P.
Deposit date:2010-03-08
Release date:2010-07-21
Last modified:2011-07-13
Method:SOLUTION NMR
Cite:Minor Groove Orientation of the KWKK Peptide Tethered via the N-Terminal Amine to the Acrolein-Derived 1,N(2)-gamma-Hydroxypropanodeoxyguanosine Lesion with a Trimethylene Linkage .
Biochemistry, 49, 2010
2LG2
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STRUCTURE OF THE DUPLEX CONTAINING HNE DERIVED (6S,8R,11S) N2-DG CYCLIC HEMIACETAL WHEN PLACED OPPOSITE DT
Descriptor:DNA (5'-D(*GP*CP*TP*AP*GP*CP*GP*AP*GP*TP*CP*C)-3'), DNA (5'-D(*GP*GP*AP*CP*TP*TP*GP*CP*TP*AP*GP*C)-3'), (2R,5S)-5-pentyltetrahydrofuran-2-ol
Authors:Huang, H., Wang, H., Kozekova, A., Lloyd, R.S., Rizzo, C.J., Stone, M.P.
Deposit date:2011-07-19
Release date:2012-08-01
Method:SOLUTION NMR
Cite:Ring-chain tautomerization of trans-4-hydroxynonenal derived (6S,8R,11S) gamma-hydroxy-1,N2-propano-deoxyguanosine adduct when placed opposite 2'-deoxythymidine in duplex
To be Published
2LG3
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STRUCTURE OF THE DUPLEX CONTAINING HNE DERIVED (6S,8R,11S) GAMMA-HO-PDG WHEN PLACED OPPOSITE DT
Descriptor:DNA (5'-D(*GP*CP*TP*AP*GP*CP*GP*AP*GP*TP*CP*C)-3'), DNA (5'-D(*GP*GP*AP*CP*TP*TP*GP*CP*TP*AP*GP*C)-3'), (4S)-nonane-1,4-diol
Authors:Huang, H., Wang, H., Kozekova, A., Lloyd, R.S., Rizzo, C.J., Stone, M.P.
Deposit date:2011-07-19
Release date:2012-08-01
Method:SOLUTION NMR
Cite:Ring-chain tautomerization of trans-4-hydroxynonenal derived (6S,8R,11S) gamma-hydroxy-1,N2-propano-deoxyguanosine adduct when placed opposite 2'-deoxythymidine in duplex
To be Published
1WEF
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CATALYTIC DOMAIN OF MUTY FROM ESCHERICHIA COLI K20A MUTANT
Descriptor:A/G-specific adenine glycosylase, IRON/SULFUR CLUSTER
Authors:Hitomi, K., Arvai, A.S., Tainer, J.A.
Deposit date:2004-05-25
Release date:2004-09-21
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (1.9 Å)
Cite:Reaction intermediates in the catalytic mechanism of Escherichia coli MutY DNA glycosylase
J.Biol.Chem., 279, 2004
1WEG
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CATALYTIC DOMAIN OF MUTY FROM ESCHERICHIA COLI K142A MUTANT
Descriptor:A/G-specific adenine glycosylase, 1,2-ETHANEDIOL, IMIDAZOLE, ...
Authors:Hitomi, K., Arvai, A.S., Tainer, J.A.
Deposit date:2004-05-25
Release date:2004-09-21
Last modified:2014-08-20
Method:X-RAY DIFFRACTION (1.8 Å)
Cite:Reaction intermediates in the catalytic mechanism of Escherichia coli MutY DNA glycosylase
J.Biol.Chem., 279, 2004
1WEI
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CATALYTIC DOMAIN OF MUTY FROM ESCHERICHIA COLI K20A MUTANT COMPLEXED TO ADENINE
Descriptor:A/G-specific adenine glycosylase, ADENINE, 1,2-ETHANEDIOL, ...
Authors:Hitomi, K., Arvai, A.S., Tainer, J.A.
Deposit date:2004-05-25
Release date:2004-09-21
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (1.45 Å)
Cite:Reaction intermediates in the catalytic mechanism of Escherichia coli MutY DNA glycosylase
J.Biol.Chem., 279, 2004
2HLI
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SOLUTION STRUCTURE OF CROTONALDEHYDE-DERIVED N2-[3-OXO-1(S)-METHYL-PROPYL]-DG DNA ADDUCT IN THE 5'-CPG-3' SEQUENCE
Descriptor:DNA dodecamer with S-crotonaldehyde adduct, DNA dodecamer
Authors:Cho, Y.-J., Wang, H., Kozekov, I.D., Kurtz, A.J., Jacob, J., Voehler, M., Smith, J., Harris, T.M., Rizzo, C.J., Stone, M.P.
Deposit date:2006-07-07
Release date:2006-09-19
Last modified:2018-01-31
Method:SOLUTION NMR
Cite:Orientation of the Crotonaldehyde-Derived N(2)-[3-Oxo-1(S)-methyl-propyl]-dG DNA Adduct Hinders Interstrand Cross-Link Formation in the 5'-CpG-3' Sequence
Chem.Res.Toxicol., 19, 2006
4JUZ
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TERNARY COMPLEX OF GAMMA-OHPDG ADDUCT MODIFIED DNA (ZERO PRIMER) WITH DNA POLYMERASE IV AND INCOMING DGTP
Descriptor:DNA polymerase IV, DNA (5'-D(P*CP*(KAG)P*GP*AP*AP*TP*CP*CP*TP*TP*CP*CP*CP*CP*C)-3'), DNA (5'-D(*GP*GP*GP*GP*GP*AP*AP*GP*GP*AP*TP*TP*CP*C)-3'), ...
Authors:Banerjee, S., Shanmugam, G., Stone, M.P.
Deposit date:2013-03-25
Release date:2013-08-28
Last modified:2013-10-09
Method:X-RAY DIFFRACTION (2.65 Å)
Cite:Ring-Opening of the gamma-OH-PdG Adduct Promotes Error-Free Bypass by the Sulfolobus solfataricus DNA Polymerase Dpo4.
Chem.Res.Toxicol., 26, 2013
4JV0
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RING-OPENING OF THE -OH-PDG ADDUCT IN TERNARY COMPLEXES WITH THE SULFOLOBUS SOLFATARICUS DNA POLYMERASE DPO4
Descriptor:DNA polymerase IV, DNA (5'-D(P*TP*(KAG)P*GP*AP*AP*TP*CP*CP*TP*TP*CP*CP*CP*CP*C)-3'), DNA (5'-D(*GP*GP*GP*GP*GP*AP*AP*GP*GP*AP*TP*TP*CP*C)-3'), ...
Authors:Banerjee, S., Shanmugam, G., Stone, M.P.
Deposit date:2013-03-25
Release date:2013-08-28
Last modified:2013-10-09
Method:X-RAY DIFFRACTION (2.95 Å)
Cite:Ring-Opening of the gamma-OH-PdG Adduct Promotes Error-Free Bypass by the Sulfolobus solfataricus DNA Polymerase Dpo4.
Chem.Res.Toxicol., 26, 2013
4JV1
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TERNARY COMPLEX OF GAMMA-OHPDG ADDUCT MODIFIED DNA WITH DNA (-1 PRIMER) POLYMERASE IV AND INCOMING DGTP
Descriptor:DNA polymerase IV, DNA (5'-D(P*CP*(HN1)P*GP*AP*AP*TP*CP*CP*TP*TP*CP*CP*CP*CP*C)-3'), DNA (5'-D(*GP*GP*GP*GP*GP*AP*AP*GP*GP*AP*TP*TP*C)-3'), ...
Authors:Banerjee, S., Shanmugam, G., Stone, M.P.
Deposit date:2013-03-25
Release date:2013-08-28
Last modified:2013-10-09
Method:X-RAY DIFFRACTION (2.3 Å)
Cite:Ring-Opening of the gamma-OH-PdG Adduct Promotes Error-Free Bypass by the Sulfolobus solfataricus DNA Polymerase Dpo4.
Chem.Res.Toxicol., 26, 2013
4JV2
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TERNARY COMPLEX OF GAMMA-OHPDG ADDUCT MODIFIED DNA WITH DNA (-1 PRIMER) POLYMERASE IV AND INCOMING DATP
Descriptor:DNA polymerase IV, DNA (5'-D(P*TP*(HN1)P*GP*AP*AP*TP*CP*CP*TP*TP*CP*CP*CP*CP*C)-3'), DNA (5'-D(*GP*GP*GP*GP*GP*AP*AP*GP*GP*AP*TP*TP*C)-3'), ...
Authors:Banerjee, S., Shanmugam, G., Stone, M.P.
Deposit date:2013-03-25
Release date:2013-08-28
Last modified:2013-10-09
Method:X-RAY DIFFRACTION (2.74 Å)
Cite:Ring-Opening of the gamma-OH-PdG Adduct Promotes Error-Free Bypass by the Sulfolobus solfataricus DNA Polymerase Dpo4.
Chem.Res.Toxicol., 26, 2013