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5JUM
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CRYSTAL STRUCTURE OF HUMAN DNA POLYMERASE ETA INSERTING DCTP OPPOSITE N-(2'-DEOXYGUANOSIN-8- YL)-3-AMINOBENZANTHRONE (C8-DG-ABA)
Descriptor:DNA polymerase eta, DNA (5'-D(*C*AP*TP*(4E9)P*AP*TP*GP*AP*CP*GP*CP*T)-3'), DNA (5'-D(*AP*GP*CP*GP*TP*CP*AP*T)-3'), ...
Authors:Patra, A., Politica, D.A., Stone, M.P., Egli, M.
Deposit date:2016-05-10
Release date:2016-09-07
Last modified:2019-01-16
Method:X-RAY DIFFRACTION (2.6 Å)
Cite:Mechanism of Error-Free Bypass of the Environmental Carcinogen N-(2'-Deoxyguanosin-8-yl)-3-aminobenzanthrone Adduct by Human DNA Polymerase eta.
Chembiochem, 17, 2016
2N4M
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BASE-DISPLACED INTERCALATED STRUCTURE OF THE N-(2'DEOXYGUANOSIN-8-YL)-3-AMINOBENZANTHRONE DNA ADDUCT
Descriptor:DNA (5'-D(*GP*TP*GP*CP*(4E9)P*TP*GP*TP*TP*TP*GP*T)-3'), DNA (5'-D(*AP*CP*AP*AP*AP*CP*AP*CP*GP*CP*AP*C)-3')
Authors:Politica, D.A., Stone, M.P., Malik, C.K., Basu, A.K.
Deposit date:2015-06-23
Release date:2016-07-06
Method:SOLUTION NMR
Cite:Base-Displaced Intercalated Structure of the N-(2'-Deoxyguanosin-8-yl)-3-aminobenzanthrone DNA Adduct.
Chem.Res.Toxicol., 28, 2015
2N0Q
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N2-DG-IQ MODIFIED DNA AT THE G1 POSITION OF THE NARI RECOGNITION SEQUENCE
Descriptor:DNA_(5'-D(*CP*TP*CP*(IQG)P*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., Hawkins, E., Rizzo, C., Stone, M.
Deposit date:2015-03-11
Release date:2015-08-19
Method:SOLUTION NMR
Cite:Base-Displaced Intercalated Conformation of the 2-Amino-3-methylimidazo[4,5-f]quinoline N(2)-dG DNA Adduct Positioned at the Nonreiterated G(1) in the NarI Restriction Site.
Chem.Res.Toxicol., 28, 2015
4RU9
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CRYSTAL STRUCTURE OF HUMAN DNA POLYMERASE ETA INSERTING DCMPNPP OPPOSITE A MEFAPY-DG ADDUCTED DNA TEMPLATE
Descriptor:DNA polymerase eta, Nucleic acids Template: CAT(MF7)ATGACGCT, Nucleic acids Primar: AGCGTCAT, ...
Authors:Patra, A., Egli, M.
Deposit date:2014-11-18
Release date:2015-08-05
Method:X-RAY DIFFRACTION (2.65 Å)
Cite:Structural Basis for Error-Free Bypass of the 5-N-Methylformamidopyrimidine-dG Lesion by Human DNA Polymerase eta and Sulfolobus solfataricus P2 Polymerase IV.
J.Am.Chem.Soc., 137, 2015
4RUA
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CRYSTAL STRUCTURE OF Y-FAMILY DNA POLYMERASE DPO4 BYPASSING A MEFAPY-DG ADDUCT
Descriptor:DNA polymerase IV, Nucleic acids Template: TCAT(MF7)GAATCCTTCCCCC, Nucleic acids Primar: GGGGGAAGGATTC, ...
Authors:Patra, A., Banerjee, S., Stone, M.P., Egli, M.
Deposit date:2014-11-18
Release date:2015-08-05
Method:X-RAY DIFFRACTION (3.07 Å)
Cite:Structural Basis for Error-Free Bypass of the 5-N-Methylformamidopyrimidine-dG Lesion by Human DNA Polymerase eta and Sulfolobus solfataricus P2 Polymerase IV.
J.Am.Chem.Soc., 137, 2015
4RUC
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CRYSTAL STRUCTURE OF Y-FAMILY DNA POLYMERASE DPO4 EXTENDING FROM A MEFAPY-DG:DC PAIR
Descriptor:DNA polymerase IV, Nucleic acids Template: TCAT(MF7)TAATCCTTCCCCC, Nucleic acids Primar: GGGGGAAGGATTAC, ...
Authors:Patra, A., Banerjee, S., Stone, M.P., Egli, M.
Deposit date:2014-11-18
Release date:2015-08-05
Method:X-RAY DIFFRACTION (2.9 Å)
Cite:Structural Basis for Error-Free Bypass of the 5-N-Methylformamidopyrimidine-dG Lesion by Human DNA Polymerase eta and Sulfolobus solfataricus P2 Polymerase IV.
J.Am.Chem.Soc., 137, 2015
2MMF
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SOLUTION STRUCTURE OF AGA MODIFIED
Descriptor:DNA_(5'-D(*CP*TP*AP*AP*(FAG)P*AP*TP*TP*CP*A)-3'), DNA_(5'-D(*TP*GP*AP*AP*TP*CP*TP*TP*AP*G)-3')
Authors:Li, L., Stone, M.
Deposit date:2014-03-14
Release date:2015-02-25
Last modified:2015-12-23
Method:SOLUTION NMR
Cite:DNA Sequence Modulates Geometrical Isomerism of the trans-8,9-Dihydro-8-(2,6-diamino-4-oxo-3,4-dihydropyrimid-5-yl-formamido)-9-hydroxy Aflatoxin B1 Adduct.
Chem.Res.Toxicol., 28, 2015
2MMQ
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SOLUTION STRUCTURE OF AGT FAPY MODIFIED DUPLEX
Descriptor:DNA_(5'-D(*CP*TP*AP*AP*(FAG)P*TP*TP*TP*CP*A)-3'), DNA_(5'-D(*TP*GP*AP*AP*AP*CP*TP*TP*AP*G)-3')
Authors:Li, L., Stone, M.
Deposit date:2014-03-17
Release date:2015-02-25
Last modified:2015-12-23
Method:SOLUTION NMR
Cite:DNA Sequence Modulates Geometrical Isomerism of the trans-8,9-Dihydro-8-(2,6-diamino-4-oxo-3,4-dihydropyrimid-5-yl-formamido)-9-hydroxy Aflatoxin B1 Adduct.
Chem.Res.Toxicol., 28, 2015
2MMR
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AGC FAPY MODIFIED DUPLEX MAJOR ISOMER
Descriptor:DNA_(5'-D(*CP*TP*AP*AP*(FAG)P*CP*TP*TP*CP*A)-3'), DNA_(5'-D(*TP*GP*AP*AP*GP*CP*TP*TP*AP*G)-3')
Authors:Li, L., Stone, M.
Deposit date:2014-03-17
Release date:2015-02-25
Last modified:2015-12-23
Method:SOLUTION NMR
Cite:DNA Sequence Modulates Geometrical Isomerism of the trans-8,9-Dihydro-8-(2,6-diamino-4-oxo-3,4-dihydropyrimid-5-yl-formamido)-9-hydroxy Aflatoxin B1 Adduct.
Chem.Res.Toxicol., 28, 2015
2MMS
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AG(7-DEAZA)G FAPY MODIFIED DUPLEX
Descriptor:DNA_(5'-D(*CP*TP*AP*AP*(FAG)P*(7GU)P*TP*TP*CP*A)-3'), DNA_(5'-D(*TP*GP*AP*AP*CP*CP*TP*TP*AP*G)-3')
Authors:Li, L., Stone, M.
Deposit date:2014-03-17
Release date:2015-02-25
Last modified:2015-12-23
Method:SOLUTION NMR
Cite:DNA Sequence Modulates Geometrical Isomerism of the trans-8,9-Dihydro-8-(2,6-diamino-4-oxo-3,4-dihydropyrimid-5-yl-formamido)-9-hydroxy Aflatoxin B1 Adduct.
Chem.Res.Toxicol., 28, 2015
4PWM
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CRYSTAL STRUCTURE OF DICKERSON DREW DODECAMER WITH 5-CARBOXYCYTOSINE
Descriptor:5'-[CGCGAATT(5CC)GCG]-3'
Authors:Szulik, M.W., Pallan, P., Banerjee, S., Voehler, M., Egli, M., Stone, M.P.
Deposit date:2014-03-20
Release date:2015-02-11
Last modified:2015-02-25
Method:X-RAY DIFFRACTION (1.95 Å)
Cite:Differential stabilities and sequence-dependent base pair opening dynamics of watson-crick base pairs with 5-hydroxymethylcytosine, 5-formylcytosine, or 5-carboxylcytosine.
Biochemistry, 54, 2015
4QC7
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DODECAMER STRUCTURE OF 5-FORMYLCYTOSINE CONTAINING DNA
Descriptor:short DNA strands
Authors:Szulik, M.W., Pallan, P., Egli, M., Stone, M.P.
Deposit date:2014-05-09
Release date:2015-02-11
Last modified:2015-02-25
Method:X-RAY DIFFRACTION (1.9 Å)
Cite:Differential stabilities and sequence-dependent base pair opening dynamics of watson-crick base pairs with 5-hydroxymethylcytosine, 5-formylcytosine, or 5-carboxylcytosine.
Biochemistry, 54, 2015
2MNX
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MAJOR GROOVE ORIENTATION OF THE (2S)-N6-(2-HYDROXY-3-BUTEN-1-YL)-2'-DEOXYADENOSINE DNA ADDUCT INDUCED BY 1,2-EPOXY-3-BUTENE
Descriptor:5'-D(*CP*GP*GP*AP*CP*(6HB)P*AP*GP*AP*AP*G)-3', 5'-D(*CP*TP*TP*CP*TP*TP*GP*TP*CP*CP*G)-3'
Authors:Kowal, E.A., Kotapati, S., Turo, M., Tretyakova, N., Stone, M.P.
Deposit date:2014-04-16
Release date:2014-10-08
Last modified:2014-11-05
Method:SOLUTION NMR
Cite:Major Groove Orientation of the (2S)-N(6)-(2-Hydroxy-3-buten-1-yl)-2'-deoxyadenosine DNA Adduct Induced by 1,2-Epoxy-3-butene.
Chem.Res.Toxicol., 27, 2014
2MO2
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SOLUTION NMR STRUCTURE OF DNA DODECAMER CONTAINING THE 5-HYDROXYCYTOSINE
Descriptor:DNA_(5'-D(*CP*GP*CP*GP*AP*AP*TP*TP*(5OC)P*GP*CP*G)-3')
Authors:Donahue, P.S., Szulik, M.W., Stone, M.P.
Deposit date:2014-04-17
Release date:2014-09-10
Method:SOLUTION NMR
Cite:Characterization of 5-hydroxycytosine in DNA
To be Published
2MO7
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SOLUTION NMR STRUCTURE OF DNA DODECAMER WITH A:C MISMATCH
Descriptor:DNA_(5'-D(*CP*GP*CP*AP*AP*AP*TP*TP*CP*GP*CP*G)-3')
Authors:Donahue, P.S., Szulik, M.W., Stone, M.P.
Deposit date:2014-04-18
Release date:2014-09-10
Method:SOLUTION NMR
Cite:Characterization of 5-hydroxycytosine in DNA
To be Published
2MHX
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STRUCTURE OF EXOCYCLIC R,R N6,N6-(2,3-DIHYDROXY-1,4-BUTADIYL)-2'-DEOXYADENOSINE ADDUCT INDUCED BY 1,2,3,4-DIEPOXYBUTANE IN DNA
Descriptor:5'-D(*CP*GP*GP*AP*CP*(RBD)P*AP*GP*AP*AP*G)-3'), 5'-D(*CP*TP*TP*CP*TP*TP*GP*TP*CP*CP*G)-3')
Authors:Kowal, E.A., Seneviratne, U., Wickramaratne, S., Doherty, K.E., Cao, X., Tretyakova, N., Stone, M.P.
Deposit date:2013-12-05
Release date:2014-05-28
Last modified:2014-06-04
Method:SOLUTION NMR
Cite:Structures of Exocyclic R,R- and S,S-N(6),N(6)-(2,3-Dihydroxybutan-1,4-diyl)-2'-Deoxyadenosine Adducts Induced by 1,2,3,4-Diepoxybutane.
Chem.Res.Toxicol., 27, 2014
2MHZ
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STRUCTURE OF EXOCYCLIC S,S N6,N6-(2,3-DIHYDROXY-1,4-BUTADIYL)-2'-DEOXYADENOSINE ADDUCT INDUCED BY 1,2,3,4-DIEPOXYBUTANE IN DNA
Descriptor:5'-D(*CP*GP*GP*AP*CP*(SDE)P*AP*GP*AP*AP*G)-3', 5'-D(*CP*TP*TP*CP*TP*TP*GP*TP*CP*CP*G)-3'
Authors:Kowal, E.A., Seneviratne, U., Wickramaratne, S., Doherty, K.E., Cao, X., Tretyakova, N., Stone, M.P.
Deposit date:2013-12-05
Release date:2014-05-28
Last modified:2014-06-04
Method:SOLUTION NMR
Cite:Structures of Exocyclic R,R- and S,S-N(6),N(6)-(2,3-Dihydroxybutan-1,4-diyl)-2'-Deoxyadenosine Adducts Induced by 1,2,3,4-Diepoxybutane.
Chem.Res.Toxicol., 27, 2014
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
4I9V
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THE ATOMIC STRUCTURE OF 5-HYDROXYMETHYL 2'-DEOXYCITIDINE BASE PAIRED WITH 2'-DEOXYGUANOSINE IN DICKERSON DREW DODECAMER
Descriptor:DNA (5'-D(*CP*GP*CP*GP*AP*AP*TP*TP*(5HC)P*GP*CP*G)-3'), MAGNESIUM ION, SPERMINE (FULLY PROTONATED FORM)
Authors:Nocek, B., Szulik, M.W., Joachimiak, A., Stone, M.P.
Deposit date:2012-12-05
Release date:2013-11-20
Last modified:2015-02-25
Method:X-RAY DIFFRACTION (1.02 Å)
Cite:Differential stabilities and sequence-dependent base pair opening dynamics of watson-crick base pairs with 5-hydroxymethylcytosine, 5-formylcytosine, or 5-carboxylcytosine.
Biochemistry, 54, 2015
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
4HQI
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STRUCTURE OF O6-BENZYL-2'-DEOXYGUANOSINE OPPOSITE PERIMIDINONE-DERIVED SYNTHETIC NUCLEOSIDE IN DNA DUPLEX
Descriptor:Short modified nucleic acids, SPERMINE, STRONTIUM ION
Authors:Kowal, E.A., Lad, R., Pallan, P.S., Muffly, E., Wawrzak, Z., Egli, M., Sturla, S.J., Stone, M.P.
Deposit date:2012-10-25
Release date:2013-07-10
Last modified:2013-09-11
Method:X-RAY DIFFRACTION (1.7 Å)
Cite:Recognition of O6-benzyl-2'-deoxyguanosine by a perimidinone-derived synthetic nucleoside: a DNA interstrand stacking interaction.
Nucleic Acids Res., 41, 2013
2M11
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STRUCTURE OF PERIMIDINONE-DERIVED SYNTHETIC NUCLEOSIDE PAIRED WITH GUANINE IN DNA DUPLEX
Descriptor:DNA (5'-D(*CP*GP*CP*GP*AP*AP*TP*TP*(D3N)P*GP*CP*G)-3')
Authors:Kowal, E.A., Lad, R., Pallan, P.S., Muffly, E., Wawrzak, Z., Egli, M., Sturla, S.J., Stone, M.P.
Deposit date:2012-11-09
Release date:2013-06-12
Last modified:2013-09-11
Method:SOLUTION NMR
Cite:Recognition of O6-benzyl-2'-deoxyguanosine by a perimidinone-derived synthetic nucleoside: a DNA interstrand stacking interaction.
Nucleic Acids Res., 41, 2013