6FK5
 
 | | Structure of 3' phosphatase NExo (D146N) from Neisseria bound to DNA substrate in presence of magnesium ion | | 分子名称: | (4S)-2-METHYL-2,4-PENTANEDIOL, DNA (5'-D(P*CP*TP*AP*GP*CP*GP*AP*AP*GP*CP*TP*AP*GP*A)-3'), MAGNESIUM ION, ... | | 著者 | Silhan, J, Zhao, Q, Boura, E, Thomson, H, Foster, A, Tang, C.M, Freemont, P.S, Baldwin, G.S. | | 登録日 | 2018-01-23 | | 公開日 | 2018-10-31 | | 最終更新日 | 2024-01-17 | | 実験手法 | X-RAY DIFFRACTION (2.02 Å) | | 主引用文献 | Structural basis for recognition and repair of the 3'-phosphate by NExo, a base excision DNA repair nuclease from Neisseria meningitidis.
Nucleic Acids Res., 46, 2018
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6FKE
 | | Structure of 3' phosphatase NExo (D146N) from Neisseria bound to product DNA hairpin | | 分子名称: | (4S)-2-METHYL-2,4-PENTANEDIOL, DNA (5'-D(*GP*TP*AP*GP*CP*GP*AP*AP*GP*CP*TP*A)-3'), Exodeoxyribonuclease III, ... | | 著者 | Silhan, J, Zhao, Q, Boura, E, Thomson, H, Foster, A, Tang, C.M, Freemont, P.S, Baldwin, G.S. | | 登録日 | 2018-01-23 | | 公開日 | 2018-10-31 | | 最終更新日 | 2024-01-17 | | 実験手法 | X-RAY DIFFRACTION (2.151 Å) | | 主引用文献 | Structural basis for recognition and repair of the 3'-phosphate by NExo, a base excision DNA repair nuclease from Neisseria meningitidis.
Nucleic Acids Res., 46, 2018
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4DKZ
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6FK4
 | | Structure of 3' phosphatase NExo (WT) from Neisseria bound to DNA substrate | | 分子名称: | (4S)-2-METHYL-2,4-PENTANEDIOL, DNA (5'-D(P*GP*CP*TP*AP*GP*CP*GP*AP*AP*GP*CP*TP*AP*GP*A)-3'), Exodeoxyribonuclease III | | 著者 | Silhan, J, Zhao, Q, Boura, E, Thomson, H, Foster, A, Tang, C.M, Freemont, P.S, Baldwin, G.S. | | 登録日 | 2018-01-23 | | 公開日 | 2018-10-31 | | 最終更新日 | 2024-01-17 | | 実験手法 | X-RAY DIFFRACTION (2.297 Å) | | 主引用文献 | Structural basis for recognition and repair of the 3'-phosphate by NExo, a base excision DNA repair nuclease from Neisseria meningitidis.
Nucleic Acids Res., 46, 2018
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4FSX
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4FT2
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3SWC
 | | GLP (G9a-like protein) SET domain in complex with Dnmt3aK44me2 peptide | | 分子名称: | DNA (cytosine-5)-methyltransferase 3A, Histone-lysine N-methyltransferase EHMT1, S-ADENOSYL-L-HOMOCYSTEINE, ... | | 著者 | Chang, Y, Horton, J.R, Zhang, X, Cheng, X. | | 登録日 | 2011-07-13 | | 公開日 | 2011-11-30 | | 最終更新日 | 2023-09-13 | | 実験手法 | X-RAY DIFFRACTION (2.332 Å) | | 主引用文献 | MPP8 mediates the interactions between DNA methyltransferase Dnmt3a and H3K9 methyltransferase GLP/G9a.
Nat Commun, 2, 2011
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3SVM
 | | Human MPP8 - human DNMT3AK47me2 peptide | | 分子名称: | DNA (cytosine-5)-methyltransferase 3A, M-phase phosphoprotein 8 | | 著者 | Chang, Y, Horton, J.R, Zhang, X, Cheng, X. | | 登録日 | 2011-07-12 | | 公開日 | 2011-11-30 | | 最終更新日 | 2023-09-13 | | 実験手法 | X-RAY DIFFRACTION (2.31 Å) | | 主引用文献 | MPP8 mediates the interactions between DNA methyltransferase Dnmt3a and H3K9 methyltransferase GLP/G9a.
Nat Commun, 2, 2011
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3SW9
 | | GLP (G9a-like protein) SET domain in complex with Dnmt3aK44me0 peptide | | 分子名称: | DNA (cytosine-5)-methyltransferase 3A, Histone-lysine N-methyltransferase EHMT1, SINEFUNGIN, ... | | 著者 | Chang, Y, Horton, J.R, Zhang, X, Cheng, X. | | 登録日 | 2011-07-13 | | 公開日 | 2011-12-07 | | 最終更新日 | 2023-09-13 | | 実験手法 | X-RAY DIFFRACTION (3.05 Å) | | 主引用文献 | MPP8 mediates the interactions between DNA methyltransferase Dnmt3a and H3K9 methyltransferase GLP/G9a.
Nat Commun, 2, 2011
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6QLC
 | | The ssDNA-binding RNA polymerase cofactor Drc from Pseudomonas phage LUZ7 | | 分子名称: | PHOSPHATE ION, ssDNA binding RNA Polymerase cofactor | | 著者 | De Zitter, E, Boon, M, De Smet, J, Lavigne, R, Van Meervelt, L. | | 登録日 | 2019-01-31 | | 公開日 | 2019-10-30 | | 最終更新日 | 2024-05-15 | | 実験手法 | X-RAY DIFFRACTION (2.2 Å) | | 主引用文献 | 'Drc', a structurally novel ssDNA-binding transcription regulator of N4-related bacterial viruses.
Nucleic Acids Res., 48, 2020
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5DQO
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2LYG
 | | Fuc_TBA | | 分子名称: | 2-hydroxyethyl 6-deoxy-beta-L-galactopyranoside, DNA (5'-D(P*GP*GP*TP*TP*GP*GP*TP*GP*TP*GP*GP*TP*TP*GP*G)-3') | | 著者 | Gomez-Pinto, I, Vengut-Climent, E, Lucas, R, Avio, A, Eritja, R, Gonzalez-Ibaez, C, Morales, J. | | 登録日 | 2012-09-18 | | 公開日 | 2014-01-29 | | 最終更新日 | 2024-05-01 | | 実験手法 | SOLUTION NMR | | 主引用文献 | Carbohydrate-DNA interactions at G-quadruplexes: folding and stability changes by attaching sugars at the 5'-end.
Chemistry, 19, 2013
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1D14
 | | STRUCTURE OF 11-DEOXYDAUNOMYCIN BOUND TO DNA CONTAINING A PHOSPHOROTHIOATE | | 分子名称: | 6-DEOXYDAUNOMYCIN, DNA (5'-D(*CP*GP*TP*(AS)P*CP*G)-3') | | 著者 | Williams, L.D, Egli, M, Ughetto, G, Van Der Marel, G.A, Van Boom, J.H, Quigley, G.J, Wang, A.H.-J, Rich, A, Frederick, C.A. | | 登録日 | 1989-10-20 | | 公開日 | 1990-10-15 | | 最終更新日 | 2024-02-07 | | 実験手法 | X-RAY DIFFRACTION (1.5 Å) | | 主引用文献 | Structure of 11-deoxydaunomycin bound to DNA containing a phosphorothioate.
J.Mol.Biol., 215, 1990
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3TA5
 | | Cobalt bound structure of an archaeal member of the LigD 3'-phosphoesterase DNA repair enzyme family | | 分子名称: | ATP-dependent DNA ligase, N-terminal domain protein, COBALT (II) ION, ... | | 著者 | Das, U, Smith, P, Shuman, S. | | 登録日 | 2011-08-03 | | 公開日 | 2011-10-12 | | 最終更新日 | 2023-09-13 | | 実験手法 | X-RAY DIFFRACTION (1.52 Å) | | 主引用文献 | Structural insights to the metal specificity of an archaeal member of the LigD 3'-phosphoesterase DNA repair enzyme family.
Nucleic Acids Res., 40, 2012
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3TA7
 | | Zinc bound structure of an archaeal member of the LigD 3'-phosphoesterase DNA repair enzyme family | | 分子名称: | ATP-dependent DNA ligase, N-terminal domain protein, DI(HYDROXYETHYL)ETHER, ... | | 著者 | Das, U, Smith, P, Shuman, S. | | 登録日 | 2011-08-03 | | 公開日 | 2011-10-12 | | 最終更新日 | 2024-02-28 | | 実験手法 | X-RAY DIFFRACTION (1.48 Å) | | 主引用文献 | Structural insights to the metal specificity of an archaeal member of the LigD 3'-phosphoesterase DNA repair enzyme family.
Nucleic Acids Res., 40, 2012
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1D11
 | | INTERACTIONS BETWEEN AN ANTHRACYCLINE ANTIBIOTIC AND DNA MOLECULAR STRUCTURE OF DAUNOMYCIN COMPLEXED TO D(CPGPTPAPCPG) AT 1.2-ANGSTROMS RESOLUTION | | 分子名称: | DAUNOMYCIN, DNA (5'-D(*CP*GP*TP*AP*CP*G)-3'), SODIUM ION | | 著者 | Wang, A.H.-J, Ughetto, G, Quigley, G.J, Rich, A. | | 登録日 | 1989-10-20 | | 公開日 | 1990-10-15 | | 最終更新日 | 2024-02-07 | | 実験手法 | X-RAY DIFFRACTION (1.18 Å) | | 主引用文献 | Interactions between an anthracycline antibiotic and DNA: molecular structure of daunomycin complexed to d(CpGpTpApCpG) at 1.2-A resolution.
Biochemistry, 26, 1987
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2N96
 | | An unexpected mode of small molecule DNA binding provides the structural basis for DNA cleavage by the potent antiproliferative agent (-)-lomaiviticin A | | 分子名称: | (1R,1'R,2S,2'S,3R,3'R,5aR,10aR,11a'S)-2'-[(2,6-dideoxy-3-O-methyl-alpha-L-arabino-hexopyranosyl)oxy]-2,2'-diethyl-11,11 '-dihydrazinyl-6,6',9,9'-tetrahydroxy-4,4',5,5',10,10'-hexaoxo-1,1'-bis{[2,4,6-trideoxy-4-(dimethylamino)-beta-L-arabino -hexopyranosyl]oxy}[2,2',3,3',4,4',5,5',5a,8,10,10',10a,11a'-tetradecahydro-1H,1'H-[3,3'-bibenzo[b]fluorene]]-2-yl 2,6-dideoxy-3-O-methyl-alpha-L-arabino-hexopyranoside, DNA (5'-D(*GP*CP*TP*AP*TP*AP*GP*C)-3') | | 著者 | Woo, C.M, Li, Z, Paulson, E, Herzon, S.B. | | 登録日 | 2015-11-07 | | 公開日 | 2016-06-01 | | 最終更新日 | 2024-05-15 | | 実験手法 | SOLUTION NMR | | 主引用文献 | Structural basis for DNA cleavage by the potent antiproliferative agent (-)-lomaiviticin A.
Proc.Natl.Acad.Sci.USA, 113, 2016
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1DB6
 | | SOLUTION STRUCTURE OF THE DNA APTAMER 5'-CGACCAACGTGTCGCCTGGTCG-3' COMPLEXED WITH ARGININAMIDE | | 分子名称: | ARGININEAMIDE, DNA | | 著者 | Robertson, S.A, Harada, K, Frankel, A.D, Wemmer, D.E. | | 登録日 | 1999-11-02 | | 公開日 | 2000-02-03 | | 最終更新日 | 2024-05-22 | | 実験手法 | SOLUTION NMR | | 主引用文献 | Structure determination and binding kinetics of a DNA aptamer-argininamide complex.
Biochemistry, 39, 2000
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5CIU
 | | Structural basis of the recognition of H3K36me3 by DNMT3B PWWP domain | | 分子名称: | DNA (cytosine-5)-methyltransferase 3B, GLYCEROL, Histone H3.2 | | 著者 | Rondelet, G, DAL MASO, T, Willems, L, Wouters, J. | | 登録日 | 2015-07-13 | | 公開日 | 2016-03-30 | | 最終更新日 | 2024-01-10 | | 実験手法 | X-RAY DIFFRACTION (2.24 Å) | | 主引用文献 | Structural basis for recognition of histone H3K36me3 nucleosome by human de novo DNA methyltransferases 3A and 3B.
J.Struct.Biol., 194, 2016
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8AMU
 | | RepB pMV158 OBD domain bound to DDR region | | 分子名称: | DNA (5'-D(*AP*AP*AP*AP*GP*TP*CP*GP*CP*CP*GP*AP*AP*AP*AP*GP*TP*CP*GP*CP*CP*GP*A)-3'), DNA (5'-D(*TP*CP*GP*GP*CP*GP*AP*CP*TP*TP*TP*TP*CP*GP*GP*CP*GP*AP*CP*TP*TP*TP*T)-3'), MANGANESE (II) ION, ... | | 著者 | Amodio, J, Machon, C, Boer, R.D, Ruiz-Maso, J.A, del Solar, G, Coll, M. | | 登録日 | 2022-08-04 | | 公開日 | 2023-02-08 | | 最終更新日 | 2024-02-07 | | 実験手法 | X-RAY DIFFRACTION (3 Å) | | 主引用文献 | Structures of pMV158 replication initiator RepB with and without DNA reveal a flexible dual-function protein.
Nucleic Acids Res., 51, 2023
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1AXO
 | | STRUCTURAL ALIGNMENT OF THE (+)-TRANS-ANTI-[BP]DG ADDUCT POSITIONED OPPOSITE DC AT A DNA TEMPLATE-PRIMER JUNCTION, NMR, 6 STRUCTURES | | 分子名称: | 1,2,3-TRIHYDROXY-1,2,3,4-TETRAHYDROBENZO[A]PYRENE, DNA DUPLEX D(AAC-[BP]G-CTACCATCC)D(GGATGGTAGC) | | 著者 | Feng, B, Gorin, A.A, Hingerty, B.E, Geacintov, N.E, Broyde, S, Patel, D.J. | | 登録日 | 1997-10-16 | | 公開日 | 1998-07-01 | | 最終更新日 | 2024-05-22 | | 実験手法 | SOLUTION NMR | | 主引用文献 | Structural alignment of the (+)-trans-anti-benzo[a]pyrene-dG adduct positioned opposite dC at a DNA template-primer junction.
Biochemistry, 36, 1997
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6I4N
 | | Dodecamer DNA containing the synthetic base pair P-Z in complex with a pyrrole-imidazole polyamide | | 分子名称: | 3-[3-[[4-[[4-[[4-[[4-[[(2~{R})-2-azaniumyl-4-[[1-methyl-4-[[1-methyl-4-[[1-methyl-4-[(1-methylimidazol-2-yl)carbonylamino]pyrrol-2-yl]carbonylamino]pyrrol-2-yl]carbonylamino]pyrrol-2-yl]carbonylamino]butanoyl]amino]-1-methyl-imidazol-2-yl]carbonylamino]-1-methyl-pyrrol-2-yl]carbonylamino]-1-methyl-pyrrol-2-yl]carbonylamino]-1-methyl-pyrrol-2-yl]carbonylamino]propanoylamino]propyl-dimethyl-azanium, DNA (5'-D(*CP*GP*AP*TP*(DP)P*TP*AP*(DZ)P*AP*TP*CP*G)-3') | | 著者 | Padroni, G, Parkison, J, Burley, G.A. | | 登録日 | 2018-11-10 | | 公開日 | 2019-06-12 | | 最終更新日 | 2024-05-15 | | 実験手法 | SOLUTION NMR | | 主引用文献 | Sequence-Selective Minor Groove Recognition of a DNA Duplex Containing Synthetic Genetic Components.
J.Am.Chem.Soc., 141, 2019
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6KDL
 | | Crystal structure of human DNMT3B-DNMT3L complex (I) | | 分子名称: | DNA (cytosine-5)-methyltransferase 3-like, DNA (cytosine-5)-methyltransferase 3B, S-ADENOSYL-L-HOMOCYSTEINE | | 著者 | Lin, C.-C, Chen, Y.-P, Yang, W.-Z, Shen, C.-K, Yuan, H.S. | | 登録日 | 2019-07-02 | | 公開日 | 2020-02-19 | | 最終更新日 | 2023-11-22 | | 実験手法 | X-RAY DIFFRACTION (3.274 Å) | | 主引用文献 | Structural insights into CpG-specific DNA methylation by human DNA methyltransferase 3B.
Nucleic Acids Res., 48, 2020
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6KDP
 | | Crystal structure of human DNMT3B-DNMT3L complex (II) | | 分子名称: | DNA (cytosine-5)-methyltransferase 3-like, DNA (cytosine-5)-methyltransferase 3B, FORMIC ACID, ... | | 著者 | Lin, C.-C, Chen, Y.-P, Yang, W.-Z, Shen, C.-K, Yuan, H.S. | | 登録日 | 2019-07-02 | | 公開日 | 2020-02-19 | | 最終更新日 | 2023-11-22 | | 実験手法 | X-RAY DIFFRACTION (2.93 Å) | | 主引用文献 | Structural insights into CpG-specific DNA methylation by human DNA methyltransferase 3B.
Nucleic Acids Res., 48, 2020
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6KDT
 | | Crystal structure of human DNMT3B (Q772R)-DNMT3L complex | | 分子名称: | DNA (cytosine-5)-methyltransferase 3-like, DNA (cytosine-5)-methyltransferase 3B, FORMIC ACID, ... | | 著者 | Lin, C.-C, Chen, Y.-P, Yang, W.-Z, Shen, C.-K, Yuan, H.S. | | 登録日 | 2019-07-02 | | 公開日 | 2020-02-19 | | 最終更新日 | 2023-11-22 | | 実験手法 | X-RAY DIFFRACTION (2.87 Å) | | 主引用文献 | Structural insights into CpG-specific DNA methylation by human DNA methyltransferase 3B.
Nucleic Acids Res., 48, 2020
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