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PDB: 148 件
4KLU
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BU of 4klu by Molmil
DNA polymerase beta mismatched product complex with Mn2+, 15 h
分子名称: 5'-D(*CP*CP*GP*AP*CP*GP*GP*CP*GP*CP*AP*TP*CP*AP*GP*C)-3', 5'-D(*GP*CP*TP*GP*AP*TP*GP*CP*GP*CP*A)-3', 5'-D(P*GP*TP*CP*GP*G)-3', ...
著者Freudenthal, B.D, Beard, W.A, Shock, D.D, Wilson, S.H.
登録日2013-05-07
公開日2013-07-17
最終更新日2023-09-20
実験手法X-RAY DIFFRACTION (1.97 Å)
主引用文献Observing a DNA polymerase choose right from wrong.
Cell(Cambridge,Mass.), 154, 2013
7S9N
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Binary complex of DNA Polymerase Beta with Fapy-dG in the template position
分子名称: DNA (5'-D(*CP*CP*GP*AP*CP*(FAP)P*TP*CP*GP*CP*AP*TP*CP*AP*GP*C)-3'), DNA (5'-D(*GP*CP*TP*GP*AP*TP*GP*CP*GP*A)-3'), DNA (5'-D(P*GP*TP*CP*GP*G)-3'), ...
著者Freudenthal, B.D, Ryan, B.J, Smith, M.R.
登録日2021-09-21
公開日2022-08-03
最終更新日2023-10-18
実験手法X-RAY DIFFRACTION (1.71 Å)
主引用文献Structural Dynamics of a Common Mutagenic Oxidative DNA Lesion in Duplex DNA and during DNA Replication.
J.Am.Chem.Soc., 144, 2022
7S9M
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BU of 7s9m by Molmil
Crystal Structure of DNA Polymerase Beta with Ring open intermediate Fapy-dG base-paired with a dA
分子名称: DNA (5'-D(*CP*CP*GP*AP*CP*GP*GP*CP*GP*CP*AP*TP*(IFP)P*AP*GP*C)-3'), DNA (5'-D(*GP*CP*TP*AP*AP*TP*GP*CP*GP*C)-3'), DNA (5'-D(P*GP*TP*CP*GP*G)-3'), ...
著者Freudenthal, B.D, Ryan, B.J.
登録日2021-09-21
公開日2022-08-03
最終更新日2023-10-18
実験手法X-RAY DIFFRACTION (2.31 Å)
主引用文献Structural Dynamics of a Common Mutagenic Oxidative DNA Lesion in Duplex DNA and during DNA Replication.
J.Am.Chem.Soc., 144, 2022
7S9J
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BU of 7s9j by Molmil
Crystal Structure of DNA Polymerase Beta with Fapy-dG base-paired with a dC
分子名称: DNA (5'-D(*CP*CP*GP*AP*CP*GP*GP*CP*GP*CP*AP*TP*(FAP)P*AP*GP*C)-3'), DNA (5'-D(*GP*CP*TP*CP*AP*TP*GP*CP*GP*C)-3'), DNA (5'-D(P*GP*TP*CP*GP*G)-3'), ...
著者Freudenthal, B.D, Ryan, B.J.
登録日2021-09-21
公開日2022-08-03
最終更新日2023-10-18
実験手法X-RAY DIFFRACTION (1.91 Å)
主引用文献Structural Dynamics of a Common Mutagenic Oxidative DNA Lesion in Duplex DNA and during DNA Replication.
J.Am.Chem.Soc., 144, 2022
7S9P
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BU of 7s9p by Molmil
Ternary complex of DNA Polymerase Beta with Template Fapy-dG and an incoming dCTP analog
分子名称: 2'-deoxy-5'-O-[(S)-hydroxy{[(S)-hydroxy(phosphonooxy)phosphoryl]methyl}phosphoryl]cytidine, CHLORIDE ION, DNA (5'-D(*CP*CP*GP*AP*CP*(FAP)P*TP*CP*GP*CP*AP*TP*CP*AP*GP*C)-3'), ...
著者Freudenthal, B.D, Ryan, B.J, Smith, M.R.
登録日2021-09-21
公開日2022-08-03
最終更新日2023-10-18
実験手法X-RAY DIFFRACTION (1.86 Å)
主引用文献Structural Dynamics of a Common Mutagenic Oxidative DNA Lesion in Duplex DNA and during DNA Replication.
J.Am.Chem.Soc., 144, 2022
7S9K
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BU of 7s9k by Molmil
Crystal Structure of DNA Polymerase Beta with Fapy-dG base-paired with a dA
分子名称: DNA (5'-D(*CP*CP*GP*AP*CP*GP*GP*CP*GP*CP*AP*TP*(FAP)P*AP*GP*C)-3'), DNA (5'-D(*GP*CP*TP*AP*AP*TP*GP*CP*GP*C)-3'), DNA (5'-D(P*GP*TP*CP*GP*G)-3'), ...
著者Freudenthal, B.D, Ryan, B.J.
登録日2021-09-21
公開日2022-08-03
最終更新日2023-10-18
実験手法X-RAY DIFFRACTION (1.97 Å)
主引用文献Structural Dynamics of a Common Mutagenic Oxidative DNA Lesion in Duplex DNA and during DNA Replication.
J.Am.Chem.Soc., 144, 2022
7S9Q
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BU of 7s9q by Molmil
Ternary complex of DNA Polymerase Beta with Template Fapy-dG and an incoming dATP analog
分子名称: 2'-deoxy-5'-O-[(S)-hydroxy{[(S)-hydroxy(phosphonooxy)phosphoryl]methyl}phosphoryl]adenosine, DNA (5'-D(*CP*CP*GP*AP*CP*(FAP)P*TP*CP*GP*CP*AP*TP*CP*AP*GP*C)-3'), DNA (5'-D(*GP*CP*TP*GP*AP*TP*GP*CP*GP*A)-3'), ...
著者Freudenthal, B.D, Ryan, B.J, Smith, M.R.
登録日2021-09-21
公開日2022-08-03
最終更新日2023-10-18
実験手法X-RAY DIFFRACTION (1.9 Å)
主引用文献Structural Dynamics of a Common Mutagenic Oxidative DNA Lesion in Duplex DNA and during DNA Replication.
J.Am.Chem.Soc., 144, 2022
7S9O
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BU of 7s9o by Molmil
Binary complex of DNA Polymerase Beta with Ring open Intermediate Fapy-dG in the template position
分子名称: DNA (5'-D(*CP*CP*GP*AP*C*(IFP)P*TP*CP*GP*CP*AP*TP*CP*AP*GP*C)-3'), DNA (5'-D(*GP*CP*TP*GP*AP*TP*GP*CP*GP*A*(SO4))-3'), DNA (5'-D(P*GP*TP*CP*GP*G)-3'), ...
著者Freudenthal, B.D, Ryan, B.J.
登録日2021-09-21
公開日2022-08-03
最終更新日2023-10-18
実験手法X-RAY DIFFRACTION (2.23 Å)
主引用文献Structural Dynamics of a Common Mutagenic Oxidative DNA Lesion in Duplex DNA and during DNA Replication.
J.Am.Chem.Soc., 144, 2022
6P94
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BU of 6p94 by Molmil
Human APE1 C65A AP-endonuclease product complex
分子名称: 1,2-ETHANEDIOL, CHLORIDE ION, DI(HYDROXYETHYL)ETHER, ...
著者Whitaker, A.W, Stark, W.J, Freudenthal, B.D.
登録日2019-06-09
公開日2020-01-01
最終更新日2023-10-11
実験手法X-RAY DIFFRACTION (2.09 Å)
主引用文献Functions of the major abasic endonuclease (APE1) in cell viability and genotoxin resistance.
Mutagenesis, 35, 2020
6P93
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BU of 6p93 by Molmil
Human APE1 K98A AP-endonuclease product complex
分子名称: 1,2-ETHANEDIOL, CHLORIDE ION, DI(HYDROXYETHYL)ETHER, ...
著者Whitaker, A.W, Stark, W.J, Freudenthal, B.D.
登録日2019-06-09
公開日2020-01-01
最終更新日2023-10-11
実験手法X-RAY DIFFRACTION (2.1 Å)
主引用文献Functions of the major abasic endonuclease (APE1) in cell viability and genotoxin resistance.
Mutagenesis, 35, 2020
6X74
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BU of 6x74 by Molmil
Rev1 Mg2+-facilitated Product Complex with no monophosphates
分子名称: CHLORIDE ION, DNA (5'-D(*GP*GP*GP*GP*TP*GP*TP*GP*GP*TP*AP*GP*C*)-3'), DNA (5'-D(P*AP*TP*CP*GP*CP*TP*AP*CP*CP*AP*CP*AP*CP*CP*CP*C)-3'), ...
著者Weaver, T.M, Freudenthal, B.D.
登録日2020-05-29
公開日2020-09-30
最終更新日2023-10-18
実験手法X-RAY DIFFRACTION (1.69 Å)
主引用文献Visualizing Rev1 catalyze protein-template DNA synthesis.
Proc.Natl.Acad.Sci.USA, 117, 2020
6X71
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BU of 6x71 by Molmil
Rev1 Mg2+-facilitated Intermediate complex with reactant dCTP and product dCMP
分子名称: 2'-DEOXYCYTIDINE-5'-TRIPHOSPHATE, DNA (5'-D(*CP*AP*TP*CP*GP*CP*TP*AP*CP*CP*AP*CP*AP*CP*CP*CP*C)-3'), DNA (5'-D(*GP*GP*GP*GP*TP*GP*TP*GP*GP*TP*AP*GP*C*(MG))-3'), ...
著者Weaver, T.M, Freudenthal, B.D.
登録日2020-05-29
公開日2020-09-30
最終更新日2023-10-18
実験手法X-RAY DIFFRACTION (1.78 Å)
主引用文献Visualizing Rev1 catalyze protein-template DNA synthesis.
Proc.Natl.Acad.Sci.USA, 117, 2020
6X70
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BU of 6x70 by Molmil
Rev1-DNA Binary Complex
分子名称: DNA (5'-D(*CP*AP*TP*CP*GP*CP*TP*AP*CP*CP*AP*CP*AP*CP*CP*CP*C)-3'), DNA (5'-D(*GP*GP*GP*GP*TP*GP*TP*GP*GP*TP*AP*G)-3'), DNA repair protein REV1, ...
著者Weaver, T.M, Freudenthal, B.D.
登録日2020-05-29
公開日2020-09-30
最終更新日2023-10-18
実験手法X-RAY DIFFRACTION (2.05 Å)
主引用文献Visualizing Rev1 catalyze protein-template DNA synthesis.
Proc.Natl.Acad.Sci.USA, 117, 2020
6X77
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BU of 6x77 by Molmil
Rev1 R518A Ternary Complex with dCTP and Ca2+
分子名称: 2'-DEOXYCYTIDINE-5'-TRIPHOSPHATE, CALCIUM ION, DNA (5'-D(P*AP*TP*CP*GP*CP*TP*AP*CP*CP*AP*CP*AP*CP*CP*CP*C)-3'), ...
著者Weaver, T.M, Freudenthal, B.D.
登録日2020-05-29
公開日2020-09-30
最終更新日2023-10-18
実験手法X-RAY DIFFRACTION (1.64 Å)
主引用文献Visualizing Rev1 catalyze protein-template DNA synthesis.
Proc.Natl.Acad.Sci.USA, 117, 2020
6X76
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BU of 6x76 by Molmil
Rev1 L325G Mn2+-facilitated Product Complex with second dCTP bound
分子名称: 2'-DEOXYCYTIDINE-5'-TRIPHOSPHATE, DNA (5'-D(*CP*AP*TP*CP*GP*CP*TP*AP*CP*CP*AP*CP*AP*CP*CP*CP*C)-3'), DNA (5'-D(*GP*GP*GP*GP*TP*GP*TP*GP*GP*TP*AP*GP*C)-3'), ...
著者Weaver, T.M, Freudenthal, B.D.
登録日2020-05-29
公開日2020-09-30
最終更新日2023-10-18
実験手法X-RAY DIFFRACTION (2.53 Å)
主引用文献Visualizing Rev1 catalyze protein-template DNA synthesis.
Proc.Natl.Acad.Sci.USA, 117, 2020
6X72
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BU of 6x72 by Molmil
Rev1 Mg2+-facilitated Product Complex with two monophosphates
分子名称: DNA (5'-D(*CP*AP*TP*CP*GP*CP*TP*AP*CP*CP*AP*CP*AP*CP*CP*CP*C)-3'), DNA (5'-D(*GP*GP*GP*GP*TP*GP*TP*GP*GP*TP*AP*GP*C*)-3'), DNA repair protein REV1, ...
著者Weaver, T.M, Freudenthal, B.D.
登録日2020-05-29
公開日2020-09-30
最終更新日2023-10-18
実験手法X-RAY DIFFRACTION (2.19 Å)
主引用文献Visualizing Rev1 catalyze protein-template DNA synthesis.
Proc.Natl.Acad.Sci.USA, 117, 2020
6X75
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BU of 6x75 by Molmil
Rev1 Mn2+-facilitated Product Complex with second dCTP bound
分子名称: 2'-DEOXYCYTIDINE-5'-TRIPHOSPHATE, DNA (5'-D(*CP*AP*TP*CP*GP*CP*TP*AP*CP*CP*AP*CP*AP*CP*CP*CP*C)-3'), DNA (5'-D(*GP*GP*GP*GP*TP*GP*TP*GP*GP*TP*AP*GP*C)-3'), ...
著者Weaver, T.M, Freudenthal, B.D.
登録日2020-05-29
公開日2020-09-30
最終更新日2023-10-18
実験手法X-RAY DIFFRACTION (1.95 Å)
主引用文献Visualizing Rev1 catalyze protein-template DNA synthesis.
Proc.Natl.Acad.Sci.USA, 117, 2020
6X6Z
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BU of 6x6z by Molmil
Rev1 Ternary Complex with dCTP and Ca2+
分子名称: 2'-DEOXYCYTIDINE-5'-TRIPHOSPHATE, CALCIUM ION, DNA (5'-D(*CP*AP*TP*CP*GP*CP*TP*AP*CP*CP*AP*CP*AP*CP*CP*CP*C)-3'), ...
著者Weaver, T.M, Freudenthal, B.D.
登録日2020-05-29
公開日2020-09-30
最終更新日2023-10-18
実験手法X-RAY DIFFRACTION (1.4 Å)
主引用文献Visualizing Rev1 catalyze protein-template DNA synthesis.
Proc.Natl.Acad.Sci.USA, 117, 2020
6X73
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BU of 6x73 by Molmil
Rev1 Mg2+-facilitated Product Complex with one monophosphate
分子名称: AMMONIUM ION, DNA (5'-D(*CP*AP*TP*CP*GP*CP*TP*AP*CP*CP*AP*CP*AP*CP*CP*CP*C)-3'), DNA (5'-D(*GP*GP*GP*GP*TP*GP*TP*GP*GP*TP*AP*GP*C)-3'), ...
著者Weaver, T.M, Freudenthal, B.D.
登録日2020-05-29
公開日2020-09-30
最終更新日2023-10-18
実験手法X-RAY DIFFRACTION (2.05 Å)
主引用文献Visualizing Rev1 catalyze protein-template DNA synthesis.
Proc.Natl.Acad.Sci.USA, 117, 2020
7KXR
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BU of 7kxr by Molmil
Protective antigen pore translocating lethal factor N-terminal domain
分子名称: CALCIUM ION, Lethal factor, Protective antigen
著者Machen, A.J, Freudenthal, B.D.
登録日2020-12-04
公開日2021-07-14
最終更新日2024-03-06
実験手法ELECTRON MICROSCOPY (3.3 Å)
主引用文献Anthrax toxin translocation complex reveals insight into the lethal factor unfolding and refolding mechanism.
Sci Rep, 11, 2021
7K97
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BU of 7k97 by Molmil
Human DNA polymerase beta dGDP product complex with Mn2+
分子名称: DNA (5'-D(*CP*CP*GP*AP*CP*CP*GP*CP*GP*CP*AP*TP*CP*AP*GP*C)-3'), DNA (5'-D(*GP*CP*TP*GP*AP*TP*GP*CP*GP*CP*G)-3'), DNA (5'-D(P*GP*TP*CP*GP*G)-3'), ...
著者Varela, F.A, Freudenthal, B.D.
登録日2020-09-28
公開日2021-02-03
最終更新日2023-10-18
実験手法X-RAY DIFFRACTION (2.4 Å)
主引用文献Mechanism of Deoxyguanosine Diphosphate Insertion by Human DNA Polymerase beta.
Biochemistry, 60, 2021
7K96
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BU of 7k96 by Molmil
Human DNA polymerase beta ternary complex with templating cytosine and incoming deoxyguanosine diphosphate
分子名称: 1,2-ETHANEDIOL, 2'-DEOXYGUANOSINE-5'-DIPHOSPHATE, CALCIUM ION, ...
著者Varela, F.A, Freudenthal, B.D.
登録日2020-09-28
公開日2021-02-03
最終更新日2023-10-18
実験手法X-RAY DIFFRACTION (2.1 Å)
主引用文献Mechanism of Deoxyguanosine Diphosphate Insertion by Human DNA Polymerase beta.
Biochemistry, 60, 2021
5WNZ
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BU of 5wnz by Molmil
DNA polymerase beta substrate complex with incoming 5-FodCTP
分子名称: 2'-deoxy-5-formylcytidine 5'-(tetrahydrogen triphosphate), CALCIUM ION, CHLORIDE ION, ...
著者Schaich, M.A, Smith, M.R, Cloud, A.S, Holloran, S.M, Freudenthal, B.D.
登録日2017-08-01
公開日2017-09-13
最終更新日2023-10-04
実験手法X-RAY DIFFRACTION (2.2 Å)
主引用文献Structures of a DNA Polymerase Inserting Therapeutic Nucleotide Analogues.
Chem. Res. Toxicol., 30, 2017
5WO0
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BU of 5wo0 by Molmil
DNA polymerase beta substrate complex with incoming 5-FodUTP
分子名称: 2'-deoxy-5-formyluridine 5'-(tetrahydrogen triphosphate), CALCIUM ION, CHLORIDE ION, ...
著者Schaich, M.A, Smith, M.R, Cloud, A.S, Holloran, S.M, Freudenthal, B.D.
登録日2017-08-01
公開日2017-09-13
最終更新日2023-10-04
実験手法X-RAY DIFFRACTION (1.6 Å)
主引用文献Structures of a DNA Polymerase Inserting Therapeutic Nucleotide Analogues.
Chem. Res. Toxicol., 30, 2017
5WNX
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BU of 5wnx by Molmil
DNA polymerase beta substrate complex with incoming 6-TdGTP
分子名称: 2-amino-9-{2-deoxy-5-O-[(R)-hydroxy{[(R)-hydroxy(phosphonooxy)phosphoryl]oxy}phosphoryl]-beta-D-erythro-pentofuranosyl}-1,9-dihydro-6H-purine-6-thione, CALCIUM ION, CHLORIDE ION, ...
著者Schaich, M.A, Smith, M.R, Cloud, A.S, Holloran, S.M, Freudenthal, B.D.
登録日2017-08-01
公開日2017-09-13
最終更新日2023-10-04
実験手法X-RAY DIFFRACTION (2.55 Å)
主引用文献Structures of a DNA Polymerase Inserting Therapeutic Nucleotide Analogues.
Chem. Res. Toxicol., 30, 2017

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件を2024-08-21に公開中

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