Loading
PDBj
English日本語简体中文繁體中文한국어
✖
ﾒﾆｭｰPDBj@FacebookPDBj@TwitterPDBj@YouTubewwPDB FoundationwwPDB
RCSB PDBPDBeBMRBAdv. SearchSearch help
Search by PDB author
6EO7
DownloadVisualize
BU of 6eo7 by Molmil
X-ray structure of the complex between human alpha-thrombin and modified 15-mer DNA aptamer containing 5-(3-(acetamide-N-yl)-1-propen-1-yl)-2'-deoxyuridine residue
分子名称: 2-acetamido-2-deoxy-beta-D-glucopyranose, D-phenylalanyl-N-[(2S,3S)-6-{[amino(iminio)methyl]amino}-1-chloro-2-hydroxyhexan-3-yl]-L-prolinamide, GA68B2 - MODIFIED HUMAN THROMBIN BINDING APTAMER, ...
著者Dolot, R.M, Nawrot, B, Yang, X.
登録日2017-10-09
公開日2017-10-18
最終更新日2024-01-17
実験手法X-RAY DIFFRACTION (2.24 Å)
主引用文献Crystal structures of thrombin in complex with chemically modified thrombin DNA aptamers reveal the origins of enhanced affinity.
Nucleic Acids Res., 46, 2018
4I9V
DownloadVisualize
BU of 4i9v by Molmil
The atomic structure of 5-Hydroxymethyl 2'-deoxycitidine base paired with 2'-deoxyguanosine in Dickerson Drew Dodecamer
分子名称: DNA (5'-D(*CP*GP*CP*GP*AP*AP*TP*TP*(5HC)P*GP*CP*G)-3'), MAGNESIUM ION, SPERMINE (FULLY PROTONATED FORM)
著者Nocek, B, Szulik, M.W, Joachimiak, A, Stone, M.P.
登録日2012-12-05
公開日2013-11-20
最終更新日2023-09-20
実験手法X-RAY DIFFRACTION (1.02 Å)
主引用文献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
4EBE
DownloadVisualize
BU of 4ebe by Molmil
Conformationally Restrained North-methanocarba-2'-deoxyadenosine Corrects the Error-Prone Nature of Human DNA Polymerase Iota
分子名称: 2'-DEOXYADENOSINE 5'-TRIPHOSPHATE, 5'-D(P*AP*GP*GP*AP*CP*CP*(DOC))-3', 5'-D(P*CP*TP*GP*GP*GP*TP*CP*CP*T)-3', ...
著者Eoff, R.L, Ketkar, A, Banerjee, S.
登録日2012-03-23
公開日2012-06-13
最終更新日2023-09-13
実験手法X-RAY DIFFRACTION (2.1 Å)
主引用文献A Nucleotide-Analogue-Induced Gain of Function Corrects the Error-Prone Nature of Human DNA Polymerase iota.
J.Am.Chem.Soc., 134, 2012
4FS1
DownloadVisualize
BU of 4fs1 by Molmil
Base pairing mechanism of N2,3-ethenoguanine with dTTP by human polymerase iota
分子名称: DNA 5'-D(*TP*CP*TP*(EFG)P*GP*GP*GP*TP*CP*CP*TP*AP*GP*GP*AP*CP*CP*(DOC))-3', DNA polymerase iota, MAGNESIUM ION, ...
著者Zhao, L.
登録日2012-06-26
公開日2012-08-29
最終更新日2024-02-28
実験手法X-RAY DIFFRACTION (2.5 Å)
主引用文献Basis of Miscoding of the DNA Adduct N2,3-Ethenoguanine by Human Y-family DNA Polymerases.
J.Biol.Chem., 287, 2012
4GC7
DownloadVisualize
BU of 4gc7 by Molmil
Crystal structure of Dpo4 in complex with S-MC-dADP opposite dT
分子名称: CALCIUM ION, DNA (5'-D(*G*GP*GP*GP*GP*AP*AP*GP*GP*AP*TP*TP*CP*C)-3'), DNA (5'-D(*TP*CP*AP*TP*GP*GP*AP*AP*TP*CP*CP*TP*TP*CP*CP*CP*CP*C)-3'), ...
著者Eoff, R.L, Ketkar, A, Banerjee, S, Zafar, M.K.
登録日2012-07-29
公開日2012-10-24
最終更新日2023-09-13
実験手法X-RAY DIFFRACTION (2.89 Å)
主引用文献Differential furanose selection in the active sites of archaeal DNA polymerases probed by fixed-conformation nucleotide analogues.
Biochemistry, 51, 2012
4FS2
DownloadVisualize
BU of 4fs2 by Molmil
Base pairing mechanism of N2,3-ethenoguanine with dCTP by human polymerase iota
分子名称: 2'-DEOXYCYTIDINE-5'-TRIPHOSPHATE, DNA (5'-D(*TP*CP*TP*(EFG)P*GP*GP*GP*TP*CP*CP*TP*AP*GP*GP*AP*CP*CP*(DOC))-3'), DNA polymerase iota, ...
著者Zhao, L.
登録日2012-06-26
公開日2012-08-29
最終更新日2024-02-28
実験手法X-RAY DIFFRACTION (2.05 Å)
主引用文献Basis of Miscoding of the DNA Adduct N2,3-Ethenoguanine by Human Y-family DNA Polymerases.
J.Biol.Chem., 287, 2012
4GC6
DownloadVisualize
BU of 4gc6 by Molmil
Crystal structure of Dpo4 in complex with N-MC-dAMP opposite dT
分子名称: CALCIUM ION, DNA (5'-D(*GP*GP*GP*GP*GP*AP*AP*GP*GP*AP*TP*TP*CP*C)-3'), DNA (5'-D(*TP*CP*AP*TP*GP*GP*AP*AP*TP*CP*CP*TP*TP*CP*CP*CP*CP*C)-3'), ...
著者Eoff, R.L, Ketkar, A, Banerjee, S, Zafar, M.K.
登録日2012-07-29
公開日2012-10-24
最終更新日2023-09-13
実験手法X-RAY DIFFRACTION (2.895 Å)
主引用文献Differential furanose selection in the active sites of archaeal DNA polymerases probed by fixed-conformation nucleotide analogues.
Biochemistry, 51, 2012
4JV1
DownloadVisualize
BU of 4jv1 by Molmil
Ternary complex of gamma-OHPDG adduct modified dna with dna (-1 primer) polymerase iv and incoming dgtp
分子名称: 2'-DEOXYGUANOSINE-5'-TRIPHOSPHATE, CALCIUM ION, DNA (5'-D(*GP*GP*GP*GP*GP*AP*AP*GP*GP*AP*TP*TP*C)-3'), ...
著者Banerjee, S, Shanmugam, G, Stone, M.P.
登録日2013-03-25
公開日2013-08-28
最終更新日2024-02-28
実験手法X-RAY DIFFRACTION (2.3 Å)
主引用文献Ring-Opening of the gamma-OH-PdG Adduct Promotes Error-Free Bypass by the Sulfolobus solfataricus DNA Polymerase Dpo4.
Chem.Res.Toxicol., 26, 2013
4JUZ
DownloadVisualize
BU of 4juz by Molmil
Ternary complex of gamma-OHPDG adduct modified dna (zero primer) with dna polymerase iv and incoming dgtp
分子名称: 2'-DEOXYGUANOSINE-5'-TRIPHOSPHATE, CALCIUM ION, DNA (5'-D(*GP*GP*GP*GP*GP*AP*AP*GP*GP*AP*TP*TP*CP*C)-3'), ...
著者Banerjee, S, Shanmugam, G, Stone, M.P.
登録日2013-03-25
公開日2013-08-28
最終更新日2024-02-28
実験手法X-RAY DIFFRACTION (2.65 Å)
主引用文献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
DownloadVisualize
BU of 4jv0 by Molmil
Ring-Opening of the -OH-PdG Adduct in Ternary Complexes with the Sulfolobus solfataricus DNA polymerase Dpo4
分子名称: 2'-DEOXYADENOSINE 5'-TRIPHOSPHATE, CALCIUM ION, DNA (5'-D(*GP*GP*GP*GP*GP*AP*AP*GP*GP*AP*TP*TP*CP*C)-3'), ...
著者Banerjee, S, Shanmugam, G, Stone, M.P.
登録日2013-03-25
公開日2013-08-28
最終更新日2023-09-20
実験手法X-RAY DIFFRACTION (2.95 Å)
主引用文献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
DownloadVisualize
BU of 4jv2 by Molmil
Ternary complex of gamma-OHPDG adduct modified dna with dna (-1 primer) polymerase iv and incoming datp
分子名称: 2'-DEOXYADENOSINE 5'-TRIPHOSPHATE, CALCIUM ION, DNA (5'-D(*GP*GP*GP*GP*GP*AP*AP*GP*GP*AP*TP*TP*C)-3'), ...
著者Banerjee, S, Shanmugam, G, Stone, M.P.
登録日2013-03-25
公開日2013-08-28
最終更新日2024-02-28
実験手法X-RAY DIFFRACTION (2.74 Å)
主引用文献Ring-Opening of the gamma-OH-PdG Adduct Promotes Error-Free Bypass by the Sulfolobus solfataricus DNA Polymerase Dpo4.
Chem.Res.Toxicol., 26, 2013
2Q1O
DownloadVisualize
BU of 2q1o by Molmil
Crystal Structure Analysis of the RNA Dodecamer CGC-NF2-AAUUGGCG, with an Incorporated 2,4-Difluorotoluyl Residue (NF2)
分子名称: RNA (5'-R(*CP*GP*CP*(NF2)P*AP*AP*UP*UP*GP*GP*CP*G)-3')
著者Li, F, Pallan, P.S.
登録日2007-05-25
公開日2007-10-30
最終更新日2024-04-03
実験手法X-RAY DIFFRACTION (1.1 Å)
主引用文献Crystal structure, stability and in vitro RNAi activity of oligoribonucleotides containing the ribo-difluorotoluyl nucleotide: insights into substrate requirements by the human RISC Ago2 enzyme.
Nucleic Acids Res., 35, 2007
2Q1R
DownloadVisualize
BU of 2q1r by Molmil
Crystal Structure Analysis of the RNA Dodecamer CGCGAAUUAGCG, with a G-A mismatch.
分子名称: MAGNESIUM ION, RNA (5'-R(*CP*GP*CP*GP*AP*AP*UP*UP*AP*GP*CP*G)-3')
著者Li, F, Pallan, P.S.
登録日2007-05-25
公開日2007-10-30
最終更新日2024-04-03
実験手法X-RAY DIFFRACTION (1.12 Å)
主引用文献Crystal structure, stability and in vitro RNAi activity of oligoribonucleotides containing the ribo-difluorotoluyl nucleotide: insights into substrate requirements by the human RISC Ago2 enzyme.
Nucleic Acids Res., 35, 2007
3V6H
DownloadVisualize
BU of 3v6h by Molmil
Replication of N2,3-Ethenoguanine by DNA Polymerases
分子名称: 2'-DEOXYCYTIDINE-5'-TRIPHOSPHATE, CALCIUM ION, DNA (5'-D(*GP*G*GP*GP*GP*AP*AP*GP*GP*AP*TP*TP*(DOC))-3'), ...
著者Zhao, L.
登録日2011-12-19
公開日2012-04-25
最終更新日2023-09-13
実験手法X-RAY DIFFRACTION (2.3 Å)
主引用文献Replication of n(2) ,3-ethenoguanine by DNA polymerases.
Angew.Chem.Int.Ed.Engl., 51, 2012
3V6K
DownloadVisualize
BU of 3v6k by Molmil
Replication of N2,3-Ethenoguanine by DNA Polymerases
分子名称: CALCIUM ION, DNA (5'-D(*TP*CP*AP*CP*(EFG)P*GP*AP*AP*TP*CP*CP*TP*TP*C)-3'), DNA (5'-D(P*GP*AP*AP*GP*GP*AP*TP*TP*CP*(2DT))-3'), ...
著者Zhao, L.
登録日2011-12-20
公開日2012-04-25
最終更新日2023-09-13
実験手法X-RAY DIFFRACTION (3.6 Å)
主引用文献Replication of n(2) ,3-ethenoguanine by DNA polymerases.
Angew.Chem.Int.Ed.Engl., 51, 2012
3V6J
DownloadVisualize
BU of 3v6j by Molmil
Replication of N2,3-Ethenoguanine by DNA Polymerases
分子名称: 2'-DEOXYCYTIDINE-5'-TRIPHOSPHATE, DNA (5'-D(*GP*GP*GP*GP*AP*AP*GP*GP*AP*TP*TP*(DOC))-3'), DNA (5'-D(*TP*CP*AP*TP*(EFG)P*GP*AP*AP*TP*CP*CP*TP*TP*CP*CP*CP*C)-3'), ...
著者Zhao, L.
登録日2011-12-19
公開日2012-04-25
最終更新日2023-09-13
実験手法X-RAY DIFFRACTION (2.3 Å)
主引用文献Replication of n(2) ,3-ethenoguanine by DNA polymerases.
Angew.Chem.Int.Ed.Engl., 51, 2012
2F8W
DownloadVisualize
BU of 2f8w by Molmil
Crystal structure of d(CACGTG)2
分子名称: 1,3-DIAMINOPROPANE, 5'-D(*CP*AP*CP*GP*TP*G)-3', SPERMINE
著者Narayana, N, Shamala, N, Ganesh, K.N, Viswamitra, M.A.
登録日2005-12-04
公開日2006-01-31
最終更新日2023-08-30
実験手法X-RAY DIFFRACTION (1.2 Å)
主引用文献Interaction between the Z-Type DNA Duplex and 1,3-Propanediamine: Crystal Structure of d(CACGTG)2 at 1.2 A Resolution
Biochemistry, 45, 2006
3PVX
DownloadVisualize
BU of 3pvx by Molmil
Binary complex of Aflatoxin B1 Adduct modified DNA (AFB1-FAPY) with DNA Polymerase IV
分子名称: CALCIUM ION, DNA (5'-D(*AP*TP*TP*(PVX)P*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'), ...
著者Banerjee, S.
登録日2010-12-07
公開日2011-08-10
最終更新日2024-02-21
実験手法X-RAY DIFFRACTION (3.03 Å)
主引用文献Bypass of Aflatoxin B(1) Adducts by the Sulfolobus solfataricus DNA Polymerase IV.
J.Am.Chem.Soc., 133, 2011
3PW0
DownloadVisualize
BU of 3pw0 by Molmil
Ternary complex of Aflatoxin B1 Adduct modified DNA (AFB1-FAPY) with DNA Polymerase IV and incoming dATP
分子名称: 2'-DEOXYADENOSINE 5'-TRIPHOSPHATE, CALCIUM ION, DNA (5'-D(*GP*GP*GP*GP*GP*AP*AP*GP*GP*AP*TP*TP*C)-3'), ...
著者Banerjee, S.
登録日2010-12-07
公開日2011-08-10
最終更新日2024-02-21
実験手法X-RAY DIFFRACTION (2.91 Å)
主引用文献Bypass of Aflatoxin B(1) Adducts by the Sulfolobus solfataricus DNA Polymerase IV.
J.Am.Chem.Soc., 133, 2011
3PW7
DownloadVisualize
BU of 3pw7 by Molmil
Ternary complex of Aflatoxin B1 Adduct modified DNA (AFB1-N7-Gua) with DNA Polymerase IV and incoming dCTP
分子名称: 2'-DEOXYCYTIDINE-5'-TRIPHOSPHATE, 8,9-DIHYDRO-9-HYDROXY-AFLATOXIN B1, CALCIUM ION, ...
著者Banerjee, S.
登録日2010-12-07
公開日2011-08-10
最終更新日2024-02-21
実験手法X-RAY DIFFRACTION (2.9 Å)
主引用文献Bypass of Aflatoxin B(1) Adducts by the Sulfolobus solfataricus DNA Polymerase IV.
J.Am.Chem.Soc., 133, 2011
3PW5
DownloadVisualize
BU of 3pw5 by Molmil
Ternary complex of Aflatoxin B1 Adduct modified DNA (AFB1-N7-Gua) with DNA Polymerase IV and incoming dTTP
分子名称: 8,9-DIHYDRO-9-HYDROXY-AFLATOXIN B1, CALCIUM ION, DNA (5'-D(*GP*GP*GP*GP*GP*AP*AP*GP*GP*AP*TP*TP*C)-3'), ...
著者Banerjee, S.
登録日2010-12-07
公開日2011-08-10
最終更新日2024-02-21
実験手法X-RAY DIFFRACTION (3 Å)
主引用文献Bypass of Aflatoxin B(1) Adducts by the Sulfolobus solfataricus DNA Polymerase IV.
J.Am.Chem.Soc., 133, 2011
3PW4
DownloadVisualize
BU of 3pw4 by Molmil
Ternary complex of Aflatoxin B1 Adduct modified DNA (AFB1-N7-Gua) with DNA Polymerase IV and incoming dATP
分子名称: 2'-DEOXYADENOSINE 5'-TRIPHOSPHATE, 8,9-DIHYDRO-9-HYDROXY-AFLATOXIN B1, CALCIUM ION, ...
著者Banerjee, S.
登録日2010-12-07
公開日2011-08-10
最終更新日2024-02-21
実験手法X-RAY DIFFRACTION (2.9 Å)
主引用文献Bypass of Aflatoxin B(1) Adducts by the Sulfolobus solfataricus DNA Polymerase IV.
J.Am.Chem.Soc., 133, 2011
3PW2
DownloadVisualize
BU of 3pw2 by Molmil
Ternary complex of Aflatoxin B1 Adduct modified DNA (AFB1-FAPY) with DNA Polymerase IV and incoming dTTP
分子名称: CALCIUM ION, DNA (5'-D(*GP*GP*GP*GP*GP*AP*AP*GP*GP*AP*TP*TP*C)-3'), DNA (5'-D(*TP*TP*(PVX)P*AP*AP*TP*CP*CP*TP*TP*CP*CP*CP*CP*C)-3'), ...
著者Banerjee, S.
登録日2010-12-07
公開日2011-08-10
最終更新日2024-02-21
実験手法X-RAY DIFFRACTION (2.74 Å)
主引用文献Bypass of Aflatoxin B(1) Adducts by the Sulfolobus solfataricus DNA Polymerase IV.
J.Am.Chem.Soc., 133, 2011
3OSN
DownloadVisualize
BU of 3osn by Molmil
Structural Basis for Proficient Incorporation of dTTP Opposite O6-Methylguanine by Human DNA Polymerase Iota
分子名称: 5'-D(*TP*CP*TP*(6OG)P*GP*GP*GP*TP*CP*CP*TP*AP*GP*GP*AP*CP*CP*(DOC))-3', DNA polymerase iota, MAGNESIUM ION, ...
著者Pence, M.G.
登録日2010-09-09
公開日2010-10-20
最終更新日2023-09-06
実験手法X-RAY DIFFRACTION (1.9 Å)
主引用文献Structural Basis for Proficient Incorporation of dTTP Opposite O6-Methylguanine by Human DNA Polymerase {iota}.
J.Biol.Chem., 285, 2010
3T5K
DownloadVisualize
BU of 3t5k by Molmil
Ternary complex of HNE Adduct modified DNA (5'-TXG-3' vs 14-mer) with Dpo4 and incoming dDTP
分子名称: 2'-DEOXYADENOSINE 5'-TRIPHOSPHATE, CALCIUM ION, DNA (5'-D(*CP*AP*TP*(HN0)P*GP*AP*AP*TP*CP*CP*TP*TP*CP*CP*CP*CP*C)-3'), ...
著者Banerjee, S, Christov, P.P, Kozekova, A, Rizzo, C.J, Stone, M.P.
登録日2011-07-27
公開日2012-02-15
最終更新日2024-02-28
実験手法X-RAY DIFFRACTION (2.9 Å)
主引用文献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

219515

件を2024-05-08に公開中

PDB statisticsPDBj update infoContact PDBjnumon