Author results

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
2HKB
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NMR STRUCTURE OF THE B-DNA DODECAMER CTCGGCGCCATC
Descriptor:5'-D(*CP*TP*CP*GP*GP*CP*GP*CP*CP*AP*TP*C)-3', 5'-D(*GP*AP*TP*GP*GP*CP*GP*CP*CP*GP*AP*G)-3'
Authors:Wang, F., DeMuro, N.E., Elmquist, C.E., Stover, J.S., Rizzo, C.J., Stone, M.P.
Deposit date:2006-07-03
Release date:2006-10-03
Last modified:2011-07-13
Method:SOLUTION NMR
Cite:Base-displaced intercalated structure of the food mutagen 2-amino-3-methylimidazo[4,5-f]quinoline in the recognition sequence of the NarI restriction enzyme, a hotspot for -2 bp deletions.
J.Am.Chem.Soc., 128, 2006
2HKC
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NMR STRUCTURE OF THE IQ-MODIFIED DODECAMER CTCGGC[IQ]GCCATC
Descriptor:5'-D(*CP*TP*CP*GP*GP*CP*GP*CP*CP*AP*TP*C)-3', 5'-D(*GP*AP*TP*GP*GP*CP*GP*CP*CP*GP*AP*G)-3', 3-METHYL-3H-IMIDAZO[4,5-F]QUINOLIN-2-AMINE
Authors:Wang, F., DeMuro, N.E., Elmquist, C.E., Stover, J.S., Rizzo, C.J., Stone, M.P.
Deposit date:2006-07-03
Release date:2006-10-03
Last modified:2011-07-13
Method:SOLUTION NMR
Cite:Base-displaced intercalated structure of the food mutagen 2-amino-3-methylimidazo[4,5-f]quinoline in the recognition sequence of the NarI restriction enzyme, a hotspot for -2 bp deletions.
J.Am.Chem.Soc., 128, 2006
2HMD
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STEREOCHEMISTRY MODULATES STABILITY OF REDUCED INTER-STRAND CROSS-LINKS ARISING FROM R- AND S-ALPHA-METHYL-GAMMA-OH-1,N2-PROPANO-2'-DEOXYGUANINE IN THE 5'-CPG-3' DNA SEQUENCE
Descriptor:DNA dodecamer with interstrand cross-link
Authors:Cho, Y.-J., Kozekov, I.D., Harris, T.M., Rizzo, C.J., Stone, M.P.
Deposit date:2006-07-11
Release date:2007-03-13
Last modified:2011-07-13
Method:SOLUTION NMR
Cite:Stereochemistry Modulates the Stability of Reduced Interstrand Cross-Links Arising from R- and S-alpha-CH(3)-gamma-OH-1,N(2)-Propano-2'-deoxyguanosine in the 5'-CpG-3' DNA Sequence
Biochemistry, 46, 2007
2HMR
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SOLUTION STRUCTURE OF REDUCED INTERSTRAND CROSS-LINK ARISING FROM S-ALPHA-METHYL-GAMMA-OH-1,N2-PROPANO-2'-DEOXYGUANOSINE IN THE 5'-CPG-3' DNA SEQUENCE
Descriptor:DNA dodecamer with interstrand cross-link
Authors:Cho, Y.-J., Kozekov, I.D., Harris, T.M., Rizzo, C.J., Stone, M.P.
Deposit date:2006-07-11
Release date:2007-03-13
Last modified:2011-07-13
Method:SOLUTION NMR
Cite:Stereochemistry Modulates the Stability of Reduced Interstrand Cross-Links Arising from R- and S-alpha-CH(3)-gamma-OH-1,N(2)-Propano-2'-deoxyguanosine in the 5'-CpG-3' DNA Sequence
Biochemistry, 46, 2007
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
2KTP
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STRUCTURE OF THE 1,N2-ETHENODEOXYGUANOSINE LESION OPPOSITE A ONE-BASE DELETION IN DUPLEX DNA
Descriptor:DNA (5'-D(*CP*GP*CP*AP*TP*(GNE)P*GP*AP*AP*TP*CP*C)-3'), DNA (5'-D(*GP*GP*AP*TP*TP*CP*AP*TP*GP*CP*G)-3')
Authors:Shanmugam, G., Kozekov, I.D., Guengerich, P.F., Rizzo, C.J., Stone, M.P.
Deposit date:2010-02-05
Release date:2010-03-23
Last modified:2011-07-13
Method:SOLUTION NMR
Cite:Structure of the 1,N(2)-etheno-2'-deoxyguanosine lesion in the 3'-G(epsilon dG)T-5' sequence opposite a one-base deletion.
Biochemistry, 49, 2010
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
2LBI
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N2-DG:N2-DG INTERSTRAND CROSS-LINK INDUCED BY TRANS-4-HYDROXYNONENAL
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*CP*GP*CP*TP*AP*GP*C)-3'), (4S)-nonane-1,4-diol
Authors:Huang, H., Kozekov, I.D., Wang, H., Kozekova, A., Rizzo, C.J., Stone, M.P.
Deposit date:2011-03-31
Release date:2012-04-04
Method:SOLUTION NMR
Cite:Formation of a N2-dG:N2-dG carbinolamine DNA cross-link by the trans-4-hydroxynonenal-derived (6S,8R,11S) 1,N2-dG adduct.
J.Am.Chem.Soc., 133, 2011
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
2MAV
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NMR STRUCTURE OF N2-IQ-DG AT THE G3 POSITION IN THE NARI RECOGNITION SEQUENCE
Descriptor:DNA_(5'-D(*CP*TP*CP*GP*GP*CP*GP*CP*CP*AP*TP*C)-3'), DNA_(5'-D(*GP*AP*TP*GP*GP*CP*GP*CP*CP*GP*AP*G)-3')
Authors:Stavros, K.M., Hawkins, E.K., Rizzo, C.J., Stone, M.P.
Deposit date:2013-07-18
Release date:2014-05-14
Method:SOLUTION NMR
Cite:Base-displaced intercalation of the 2-amino-3-methylimidazo[4,5-f]quinolone N2-dG adduct in the NarI DNA recognition sequence.
Nucleic Acids Res., 42, 2014
2V4Q
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POST-INSERTION COMPLEX OF THE Y-FAMILY DNA POLYMERASE DPO4 WITH M1DG CONTAINING TEMPLATE DNA
Descriptor:DNA POLYMERASE IV, 5'-D(*GP*GP*GP*GP*GP*AP*AP*GP*GP*AP *TP*TP*CP*C)-3', 5'-D(*TP*CP*AP*C M1GP*GP*AP*AP*TP*CP*CP *TP*TP*CP*CP*CP*CP*C)-3', ...
Authors:Eoff, R.L., Stafford, J.B., Szekely, J., Rizzo, C.J., Egli, M., Guengerich, F.P., Marnett, L.J.
Deposit date:2008-09-26
Release date:2009-06-16
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (2.6 Å)
Cite:Structural and Functional Analysis of Sulfolobus Solfataricus Y-Family DNA Polymerase Dpo4-Catalyzed Bypass of the Malondialdehyde-Deoxyguanosine Adduct.
Biochemistry, 48, 2009
2V4R
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NON-PRODUCTIVE COMPLEX OF THE Y-FAMILY DNA POLYMERASE DPO4 WITH DGTP SKIPPING THE M1DG ADDUCT TO PAIR WITH THE NEXT TEMPLATE CYTOSINE
Descriptor:DNA POLYMERASE IV, 5'-D(*GP*GP*GP*GP*GP*AP*AP*GP*GP*AP*TP*TP*C)-3', 5'-D(*TP*CP*AP*CP*M1GP*GP*AP*AP*TP*CP*CP *TP*TP*CP*CP*CP*CP*C)-3', ...
Authors:Eoff, R.L., Stafford, J.B., Szekely, J., Rizzo, C.J., Egli, M., Guengerich, F.P., Marnett, L.J.
Deposit date:2008-09-26
Release date:2009-06-16
Last modified:2019-10-16
Method:X-RAY DIFFRACTION (2.5 Å)
Cite:Structural and Functional Analysis of Sulfolobus Solfataricus Y-Family DNA Polymerase Dpo4-Catalyzed Bypass of the Malondialdehyde-Deoxyguanosine Adduct.
Biochemistry, 48, 2009
2W9A
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TERNARY COMPLEX OF DPO4 BOUND TO N2,N2-DIMETHYL-DEOXYGUANOSINE MODIFIED DNA WITH INCOMING DGTP
Descriptor:DNA POLYMERASE IV, 5'-D(*GP*GP*GP*GP*GP*AP*AP*GP*GP*AP *TP*TP*CP*DOC)-3', 5'-D(*TP*CP*AP*CP*O2GP*GP*AP*AP*TP*CP *CP*TP*TP*CP*CP*CP*CP*C)-3', ...
Authors:Eoff, R.L., Zhang, H., Kosekov, I.D., Rizzo, C.J., Egli, M., Guengerich, F.P.
Deposit date:2009-01-22
Release date:2009-05-12
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (2.6 Å)
Cite:Structure-Function Relationships in Miscoding by Sulfolobus Solfataricus DNA Polymerase Dpo4: Guanine N2,N2-Dimethyl Substitution Produces Inactive and Miscoding Polymerase Complexes.
J.Biol.Chem., 284, 2009
2W9B
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BINARY COMPLEX OF DPO4 BOUND TO N2,N2-DIMETHYL-DEOXYGUANOSINE MODIFIED DNA
Descriptor:DNA POLYMERASE IV, 5'-D(*GP*GP*GP*GP*GP*AP*AP*GP*GP*AP *TP*TP*CP*DOCP)-3', 5'-D(*TP*CP*AP*TP*M2GP*GP*AP*AP*TP*CP*CP *TP*TP*CP*CP*CP*CP*C)-3', ...
Authors:Eoff, R.L., Zhang, H., Kosekov, I.D., Rizzo, C.J., Egli, M., Guengerich, F.P.
Deposit date:2009-01-22
Release date:2009-05-12
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (2.28 Å)
Cite:Structure-Function Relationships in Miscoding by Sulfolobus Solfataricus DNA Polymerase Dpo4: Guanine N2,N2-Dimethyl Substitution Produces Inactive and Miscoding Polymerase Complexes.
J.Biol.Chem., 284, 2009
2W9C
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TERNARY COMPLEX OF DPO4 BOUND TO N2,N2-DIMETHYL-DEOXYGUANOSINE MODIFIED DNA WITH INCOMING DTTP
Descriptor:DNA POLYMERASE IV, 5'-D(*GP*GP*GP*GP*GP*AP*AP*GP*GP*AP *TP*TP*DOCP)-3', 5'-D(*TP*CP*AP*CP*O2GP*GP*AP*AP*TP*CP*CP *TP*TP*CP*CP*CP*CP*C)-3', ...
Authors:Eoff, R.L., Zhang, H., Kosekov, I.D., Rizzo, C.J., Egli, M., Guengerich, F.P.
Deposit date:2009-01-22
Release date:2009-05-12
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (2.9 Å)
Cite:Structure-Function Relationships in Miscoding by Sulfolobus Solfataricus DNA Polymerase Dpo4: Guanine N2,N2-Dimethyl Substitution Produces Inactive and Miscoding Polymerase Complexes.
J.Biol.Chem., 284, 2009
2Z2G
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NMR STRUCTURE OF THE IQ-MODIFIED DODECAMER CTC[IQ]GGCGCCATC
Descriptor:DNA (5'-D(*DCP*DTP*DCP*DGP*DGP*DCP*DGP*DCP*DCP*DAP*DTP*DC)-3'), DNA (5'-D(*DGP*DAP*DTP*DGP*DGP*DCP*DGP*DCP*DCP*DGP*DAP*DG)-3'), 3-METHYL-3H-IMIDAZO[4,5-F]QUINOLIN-2-AMINE
Authors:Wang, F., Elmquist, C.E., Stover, J.S., Rizzo, C.J., Stone, M.P.
Deposit date:2007-05-22
Release date:2007-10-02
Last modified:2011-07-13
Method:SOLUTION NMR
Cite:DNA sequence modulates the conformation of the food mutagen 2-amino-3-methylimidazo[4,5-f]quinoline in the recognition sequence of the NarI restriction enzyme
Biochemistry, 46, 2007
2Z2H
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NMR STRUCTURE OF THE IQ-MODIFIED DODECAMER CTCG[IQ]GCGCCATC
Descriptor:DNA (5'-D(*DCP*DTP*DCP*DGP*DGP*DCP*DGP*DCP*DCP*DAP*DTP*DC)-3'), DNA (5'-D(*DGP*DAP*DTP*DGP*DGP*DCP*DGP*DCP*DCP*DGP*DAP*DG)-3'), 3-METHYL-3H-IMIDAZO[4,5-F]QUINOLIN-2-AMINE
Authors:Wang, F., Elmquist, C.E., Stover, J.S., Rizzo, C.J., Stone, M.P.
Deposit date:2007-05-22
Release date:2007-10-02
Last modified:2011-07-13
Method:SOLUTION NMR
Cite:DNA sequence modulates the conformation of the food mutagen 2-amino-3-methylimidazo[4,5-f]quinoline in the recognition sequence of the NarI restriction enzyme
Biochemistry, 46, 2007
3T5H
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TERNARY COMPLEX OF HNE ADDUCT MODIFIED DNA (5'-CXG-3' VS 13-MER) WITH DPO4 AND INCOMING DDGT
Descriptor:DNA polymerase IV, DNA (5'-D(*CP*AP*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., Christov, P.P., Kozekova, A., Rizzo, C.J., Stone, M.P.
Deposit date:2011-07-27
Release date:2012-02-15
Last modified:2013-01-09
Method:X-RAY DIFFRACTION (2.35 Å)
Cite:Replication bypass of the trans-4-Hydroxynonenal-derived (6S,8R,11S)-1,N(2)-deoxyguanosine DNA adduct by the sulfolobus solfataricus DNA polymerase IV.
Chem.Res.Toxicol., 25, 2012
3T5J
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TERNARY COMPLEX OF HNE ADDUCT MODIFIED DNA (5'-TXG-3' VS 13-MER) WITH DPO4 AND INCOMING DDTP
Descriptor:DNA polymerase IV, DNA (5'-D(*CP*AP*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., Christov, P.P., Kozekova, A., Rizzo, C.J., Stone, M.P.
Deposit date:2011-07-27
Release date:2012-02-15
Last modified:2013-01-09
Method:X-RAY DIFFRACTION (2.4 Å)
Cite:Replication bypass of the trans-4-Hydroxynonenal-derived (6S,8R,11S)-1,N(2)-deoxyguanosine DNA adduct by the sulfolobus solfataricus DNA polymerase IV.
Chem.Res.Toxicol., 25, 2012
3T5K
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TERNARY COMPLEX OF HNE ADDUCT MODIFIED DNA (5'-TXG-3' VS 14-MER) WITH DPO4 AND INCOMING DDTP
Descriptor:DNA polymerase IV, DNA (5'-D(*CP*AP*TP*(HN0)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., Christov, P.P., Kozekova, A., Rizzo, C.J., Stone, M.P.
Deposit date:2011-07-27
Release date:2012-02-15
Last modified:2013-01-09
Method:X-RAY DIFFRACTION (2.9 Å)
Cite:Replication bypass of the trans-4-Hydroxynonenal-derived (6S,8R,11S)-1,N(2)-deoxyguanosine DNA adduct by the sulfolobus solfataricus DNA polymerase IV.
Chem.Res.Toxicol., 25, 2012
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