6BOU
 
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7NXV
 | | Crystal structure of the complex of DNase I/G-actin/PPP1R15A_582-621 | | 分子名称: | 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, ADENOSINE-5'-TRIPHOSPHATE, Actin, ... | | 著者 | Yan, Y, Ron, D. | | 登録日 | 2021-03-19 | | 公開日 | 2021-09-29 | | 最終更新日 | 2024-01-31 | | 実験手法 | X-RAY DIFFRACTION (2.55 Å) | | 主引用文献 | Higher-order phosphatase-substrate contacts terminate the integrated stress response.
Nat.Struct.Mol.Biol., 28, 2021
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4B5I
 | | Product complex of Neisseria AP endonuclease in presence of metal ions | | 分子名称: | 5'-D(*3DRP*CP*AP*TP*CP*GP)-3', 5'-D(*CP*GP*AP*TP*GP*GP*GP*TP*AP*GP*CP)-3', 5'-D(*GP*CP*TP*AP*CP)-3', ... | | 著者 | Lu, D, Silhan, J, MacDonald, J.T, Carpenter, E.P, Jensen, K, Tang, C.M, Baldwin, G.S, Freemont, P.S. | | 登録日 | 2012-08-03 | | 公開日 | 2012-10-17 | | 最終更新日 | 2024-05-08 | | 実験手法 | X-RAY DIFFRACTION (2.555 Å) | | 主引用文献 | Structural basis for the recognition and cleavage of abasic DNA in Neisseria meningitidis.
Proc. Natl. Acad. Sci. U.S.A., 109, 2012
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4GYZ
 | | Mus Musculus Tdp2 Bound to dAMP and Mg2+ | | 分子名称: | 2'-DEOXYADENOSINE-5'-MONOPHOSPHATE, CHLORIDE ION, MAGNESIUM ION, ... | | 著者 | Schellenberg, M.J, Williams, R.S. | | 登録日 | 2012-09-05 | | 公開日 | 2012-10-31 | | 最終更新日 | 2024-02-28 | | 実験手法 | X-RAY DIFFRACTION (2.556 Å) | | 主引用文献 | Mechanism of repair of 5'-topoisomerase II-DNA adducts by mammalian tyrosyl-DNA phosphodiesterase 2.
Nat.Struct.Mol.Biol., 19, 2012
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7LPJ
 | | APE1 Mn-bound phosphorothioate substrate complex with abasic ribonucleotide DNA | | 分子名称: | DNA (5'-D(*GP*CP*TP*GP*AP*TP*GP*CP*GP*C)-R(P*(YA4))-D(P*CP*GP*AP*CP*GP*GP*AP*TP*CP*C)-3'), DNA (5'-D(*GP*GP*AP*TP*CP*CP*GP*TP*CP*GP*AP*GP*CP*GP*CP*AP*TP*CP*AP*GP*C)-3'), DNA-(apurinic or apyrimidinic site) lyase, ... | | 著者 | Freudenthal, B.D, Hoitsma, N.M. | | 登録日 | 2021-02-11 | | 公開日 | 2021-08-04 | | 最終更新日 | 2023-10-18 | | 実験手法 | X-RAY DIFFRACTION (2.56 Å) | | 主引用文献 | Altered APE1 activity on abasic ribonucleotides is mediated by changes in the nucleoside sugar pucker.
Comput Struct Biotechnol J, 19, 2021
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6W3L
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6MAL
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5WN0
 | | APE1 exonuclease substrate complex with a C/G match | | 分子名称: | DNA (5'-D(*GP*CP*TP*GP*AP*TP*GP*CP*GP*C)-3'), DNA (5'-D(*GP*GP*AP*TP*CP*CP*GP*TP*CP*GP*AP*GP*CP*GP*CP*AP*TP*CP*AP*GP*C)-3'), DNA (5'-D(P*TP*CP*GP*AP*CP*GP*GP*AP*TP*CP*C)-3'), ... | | 著者 | Freudenthal, B.D, Whitaker, A.M. | | 登録日 | 2017-07-31 | | 公開日 | 2018-02-28 | | 最終更新日 | 2023-10-04 | | 実験手法 | X-RAY DIFFRACTION (2.6 Å) | | 主引用文献 | Molecular snapshots of APE1 proofreading mismatches and removing DNA damage.
Nat Commun, 9, 2018
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3G0A
 | | Mth0212 with two bound manganese ions | | 分子名称: | Exodeoxyribonuclease, GLYCEROL, MANGANESE (II) ION, ... | | 著者 | Lakomek, K, Dickmanns, A, Ficner, R. | | 登録日 | 2009-01-27 | | 公開日 | 2010-03-09 | | 最終更新日 | 2023-11-01 | | 実験手法 | X-RAY DIFFRACTION (2.6 Å) | | 主引用文献 | Crystal Structure Analysis of DNA Uridine Endonuclease Mth212 Bound to DNA
J.Mol.Biol., 399, 2010
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2A41
 | | Ternary complex of the WH2 Domain of WIP with Actin-DNAse I | | 分子名称: | ADENOSINE-5'-TRIPHOSPHATE, Actin, alpha skeletal muscle, ... | | 著者 | Chereau, D, Kerff, F, Dominguez, R. | | 登録日 | 2005-06-27 | | 公開日 | 2005-11-01 | | 最終更新日 | 2023-08-23 | | 実験手法 | X-RAY DIFFRACTION (2.6 Å) | | 主引用文献 | Actin-bound structures of Wiskott-Aldrich syndrome protein (WASP)-homology domain 2 and the implications for filament assembly
Proc.Natl.Acad.Sci.Usa, 102, 2005
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3I46
 | | Crystal structure of beta toxin from Staphylococcus aureus F277A, P278A mutant with bound calcium ions | | 分子名称: | Beta-hemolysin, CALCIUM ION, CHLORIDE ION | | 著者 | Huseby, M, Shi, K, Kruse, A.C, Ohlendorf, D.H. | | 登録日 | 2009-07-01 | | 公開日 | 2010-07-14 | | 最終更新日 | 2024-04-03 | | 実験手法 | X-RAY DIFFRACTION (2.6 Å) | | 主引用文献 | Structure and biological functions of beta toxin from Staphylococcus aureus: Role of the hydrophobic beta hairpin in virulence
To be Published
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3G4T
 | | Mth0212 (WT) in complex with a 7bp dsDNA | | 分子名称: | 5'-D(*CP*G*TP*AP*CP*TP*AP*CP*G)-3', 5'-D(*CP*GP*TP*AP*(UPS)P*TP*AP*CP*G)-3', Exodeoxyribonuclease, ... | | 著者 | Lakomek, K, Dickmanns, A, Ficner, R. | | 登録日 | 2009-02-04 | | 公開日 | 2010-03-09 | | 最終更新日 | 2023-11-01 | | 実験手法 | X-RAY DIFFRACTION (2.64 Å) | | 主引用文献 | Crystal Structure Analysis of DNA Uridine Endonuclease Mth212 Bound to DNA
J.Mol.Biol., 399, 2010
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1DEW
 | | CRYSTAL STRUCTURE OF HUMAN APE1 BOUND TO ABASIC DNA | | 分子名称: | 5'-D(*GP*CP*GP*TP*CP*CP*(3DR)P*CP*GP*AP*CP*GP*AP*CP*G)-3', 5'-D(*GP*TP*CP*GP*TP*CP*GP*GP*GP*GP*AP*CP*GP*C)-3', MAJOR APURINIC/APYRIMIDINIC ENDONUCLEASE, ... | | 著者 | Mol, C.D, Izumi, T, Mitra, S, Tainer, J.A. | | 登録日 | 1999-11-15 | | 公開日 | 2000-02-02 | | 最終更新日 | 2024-02-07 | | 実験手法 | X-RAY DIFFRACTION (2.65 Å) | | 主引用文献 | DNA-bound structures and mutants reveal abasic DNA binding by APE1 and DNA repair coordination
Nature, 403, 2000
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6W3N
 | | APE1 exonuclease substrate complex D148E | | 分子名称: | 1,2-ETHANEDIOL, CALCIUM ION, DNA (5'-D(*GP*CP*TP*GP*AP*TP*GP*CP*GP*(C7R))-3'), ... | | 著者 | Freudenthal, B.D, Whitaker, A.M. | | 登録日 | 2020-03-09 | | 公開日 | 2020-06-10 | | 最終更新日 | 2023-10-18 | | 実験手法 | X-RAY DIFFRACTION (2.69 Å) | | 主引用文献 | Molecular and structural characterization of disease-associated APE1 polymorphisms.
DNA Repair (Amst.), 91-92, 2020
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6NF0
 | | Nocturnin with bound NADPH substrate | | 分子名称: | CALCIUM ION, NADPH DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE, Nocturnin | | 著者 | Estrella, M.A, Du, J, Korennykh, A. | | 登録日 | 2018-12-18 | | 公開日 | 2019-05-01 | | 最終更新日 | 2023-10-11 | | 実験手法 | X-RAY DIFFRACTION (2.7 Å) | | 主引用文献 | The metabolites NADP+and NADPH are the targets of the circadian protein Nocturnin (Curled).
Nat Commun, 10, 2019
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7CD5
 | | mAPE1-blunt-ended dsDNA product complex | | 分子名称: | DNA(5'-D(*CP*GP*TP*AP*AP*TP*AP*CP*G)-3'), DNA-(apurinic or apyrimidinic site) endonuclease | | 著者 | Liu, T.C, Hsiao, Y.Y. | | 登録日 | 2020-06-18 | | 公開日 | 2021-01-13 | | 最終更新日 | 2023-11-29 | | 実験手法 | X-RAY DIFFRACTION (2.7 Å) | | 主引用文献 | APE1 distinguishes DNA substrates in exonucleolytic cleavage by induced space-filling.
Nat Commun, 12, 2021
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7CD6
 | | mAPE1-recessed dsDNA product complex | | 分子名称: | DNA (5'-D(*GP*CP*GP*TP*AP*AP*TP*AP*C)-3'), DNA-(apurinic or apyrimidinic site) endonuclease | | 著者 | Liu, T.C, Hsiao, Y.Y. | | 登録日 | 2020-06-18 | | 公開日 | 2021-01-13 | | 最終更新日 | 2023-11-29 | | 実験手法 | X-RAY DIFFRACTION (2.701 Å) | | 主引用文献 | APE1 distinguishes DNA substrates in exonucleolytic cleavage by induced space-filling.
Nat Commun, 12, 2021
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7N3Y
 | | Crystal Structure of Saccharomyces cerevisiae Apn2 Catalytic Domain E59Q/D222N Mutant in Complex with DNA | | 分子名称: | 1,2-ETHANEDIOL, CALCIUM ION, CITRIC ACID, ... | | 著者 | Wojtaszek, J.L, Krahn, J, Wallace, B.D, Williams, R.S. | | 登録日 | 2021-06-02 | | 公開日 | 2022-09-28 | | 最終更新日 | 2023-10-18 | | 実験手法 | X-RAY DIFFRACTION (2.73 Å) | | 主引用文献 | Molecular basis for processing of topoisomerase 1-triggered DNA damage by Apn2/APE2.
Cell Rep, 41, 2022
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4B5G
 | | Substrate bound Neisseria AP endonuclease in absence of metal ions (crystal form 2) | | 分子名称: | 5'-D(*CP*GP*AP*TP*GP*GP*GP*TP*AP*GP*CP)-3', 5'-D(*GP*CP*TP*AP*CP*(3DR)P*CP*AP*TP*CP*GP)-3', EXODEOXYRIBONUCLEASE | | 著者 | Lu, D, Silhan, J, MacDonald, J.T, Carpenter, E.P, Jensen, K, Tang, C.M, Baldwin, G.S, Freemont, P.S. | | 登録日 | 2012-08-03 | | 公開日 | 2012-10-17 | | 最終更新日 | 2024-05-08 | | 実験手法 | X-RAY DIFFRACTION (2.75 Å) | | 主引用文献 | Structural basis for the recognition and cleavage of abasic DNA in Neisseria meningitidis.
Proc. Natl. Acad. Sci. U.S.A., 109, 2012
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4B5M
 | | Neisseria AP endonuclease bound to the substrate with a cytosine orphan base | | 分子名称: | 5'-D(*3DRP*CP*AP*TP*CP*GP)-3', 5'-D(*CP*GP*AP*TP*GP*CP*GP*TP*AP*GP*CP)-3', 5'-D(*GP*CP*TP*AP*CP)-3', ... | | 著者 | Lu, D, Silhan, J, MacDonald, J.T, Carpenter, E.P, Jensen, K, Tang, C.M, Baldwin, G.S, Freemont, P.S. | | 登録日 | 2012-08-06 | | 公開日 | 2012-10-17 | | 最終更新日 | 2024-05-08 | | 実験手法 | X-RAY DIFFRACTION (2.758 Å) | | 主引用文献 | Structural basis for the recognition and cleavage of abasic DNA in Neisseria meningitidis.
Proc. Natl. Acad. Sci. U.S.A., 109, 2012
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2ISI
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6W4T
 | | APE1 Y269A phosphorothioate substrate complex with abasic DNA | | 分子名称: | DNA (5'-D(*GP*GP*AP*TP*CP*CP*GP*TP*CP*GP*GP*AP*CP*GP*CP*AP*TP*CP*AP*GP*C)-3'), DNA (5'-D(P*GP*CP*TP*GP*AP*TP*GP*CP*GP*TP*(48Z)P*CP*GP*AP*CP*GP*GP*AP*TP*CP*C)-3'), DNA-(apurinic or apyrimidinic site) lyase | | 著者 | Freudenthal, B.D, Hoitsma, N.M. | | 登録日 | 2020-03-11 | | 公開日 | 2020-06-17 | | 最終更新日 | 2023-10-18 | | 実験手法 | X-RAY DIFFRACTION (2.77 Å) | | 主引用文献 | AP-endonuclease 1 sculpts DNA through an anchoring tyrosine residue on the DNA intercalating loop.
Nucleic Acids Res., 48, 2020
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7N8S
 | | LINE-1 endonuclease domain complex with DNA | | 分子名称: | DNA (5'-D(*CP*CP*TP*TP*AP*AP*AP*AP*AP*GP*GP*AP*GP*CP*T)-3'), DNA (5'-D(*GP*CP*TP*CP*CP*TP*TP*TP*TP*TP*AP*AP*GP*GP*A)-3'), LINE-1 retrotransposable element ORF2 protein | | 著者 | Korolev, S, Miller, I. | | 登録日 | 2021-06-15 | | 公開日 | 2021-10-13 | | 最終更新日 | 2023-10-18 | | 実験手法 | X-RAY DIFFRACTION (2.79 Å) | | 主引用文献 | Structural dissection of sequence recognition and catalytic mechanism of human LINE-1 endonuclease.
Nucleic Acids Res., 49, 2021
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5INN
 | | Mouse Tdp2 D358N protein, apo state with increased disorder amongst variable DNA-binding grasp conformations | | 分子名称: | CHLORIDE ION, GLYCEROL, SULFATE ION, ... | | 著者 | Schellenberg, M.J, Appel, C.D, Williams, R.S. | | 登録日 | 2016-03-07 | | 公開日 | 2016-04-27 | | 最終更新日 | 2023-09-27 | | 実験手法 | X-RAY DIFFRACTION (2.8 Å) | | 主引用文献 | Reversal of DNA damage induced Topoisomerase 2 DNA-protein crosslinks by Tdp2.
Nucleic Acids Res., 44, 2016
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8KA5
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