PDB: 45817 件ウェブページステータス検索Chemie searchBIRD

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6PPU	Cryo-EM structure of AdnAB-AMPPNP-DNA complex 分子名称: ATP-dependent DNA helicase (UvrD/REP), DNA (29-MER), IRON/SULFUR CLUSTER, ... 著者 Jia, N, Unciuleac, M, Shuman, S, Patel, D.J. 登録日 2019-07-08 公開日 2019-11-20 最終更新日 2024-03-20 実験手法 ELECTRON MICROSCOPY (3.5 Å) 主引用文献 Structures and single-molecule analysis of bacterial motor nuclease AdnAB illuminate the mechanism of DNA double-strand break resection. Proc.Natl.Acad.Sci.USA, 116, 2019
6QEL	E. coli DnaBC apo complex 分子名称: ADENOSINE-5'-DIPHOSPHATE, DNA replication protein dnaC, MAGNESIUM ION, ... 著者 Arias-Palomo, E, Puri, N, O'Shea Murray, V.L, Yan, Q, Berger, J.M. 登録日 2019-01-08 公開日 2019-03-06 最終更新日 2024-05-15 実験手法 ELECTRON MICROSCOPY (3.9 Å) 主引用文献 Physical Basis for the Loading of a Bacterial Replicative Helicase onto DNA. Mol.Cell, 74, 2019
3PW2	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
3PW4	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
3PW5	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
2FMQ	Sodium in active site of DNA Polymerase Beta 分子名称: 2'-DEOXYURIDINE 5'-ALPHA,BETA-IMIDO-TRIPHOSPHATE, 5'-D(*CP*CP*GP*AP*CP*AP*GP*CP*GP*CP*AP*TP*CP*AP*GP*C)-3', 5'-D(*GP*CP*TP*GP*AP*TP*GP*CP*GP*C)-3', ... 著者 Batra, V.K, Beard, W.A, Shock, D.D, Krahn, J.M, Pedersen, L.C, Wilson, S.H. 登録日 2006-01-09 公開日 2006-04-25 最終更新日 2023-08-30 実験手法 X-RAY DIFFRACTION (2.2 Å) 主引用文献 Magnesium-induced assembly of a complete DNA polymerase catalytic complex. Structure, 14, 2006
3PW0	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	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
4LNQ	Crystal structure of Ifi202 HINa domain in complex with 20bp dsDNA 分子名称: 20bp DNA, Interferon-activable protein 202 著者 Li, H, Wang, Z.-X, Wu, J.-W. 登録日 2013-07-12 公開日 2014-01-08 最終更新日 2023-09-20 実験手法 X-RAY DIFFRACTION (2 Å) 主引用文献 Structural mechanism of DNA recognition by the p202 HINa domain: insights into the inhibition of Aim2-mediated inflammatory signalling. Acta Crystallogr F Struct Biol Commun, 70, 2014
8OSJ	Cryo-EM structure of CLOCK-BMAL1 bound to a nucleosomal E-box at position SHL-6.2 (DNA conformation 1) 分子名称: Basic helix-loop-helix ARNT-like protein 1, Circadian locomoter output cycles protein kaput, DNA (124-MER), ... 著者 Michael, A.K, Stoos, L, Kempf, G, Cavadini, S, Thoma, N.H. 登録日 2023-04-19 公開日 2023-05-24 最終更新日 2024-07-24 実験手法 ELECTRON MICROSCOPY (6.2 Å) 主引用文献 Cooperation between bHLH transcription factors and histones for DNA access. Nature, 619, 2023
3LZI	RB69 DNA Polymerase (Y567A) ternary complex with dATP Opposite 7,8-dihydro-8-oxoguanine 分子名称: 2'-DEOXYADENOSINE 5'-TRIPHOSPHATE, CALCIUM ION, DNA (5'-D(*GP*CP*GP*GP*AP*CP*TP*GP*CP*TP*TP*AP*(DOC))-3'), ... 著者 Wang, M, Beckman, J, Blaha, G, Wang, J, Konigsberg, W.H. 登録日 2010-03-01 公開日 2010-05-12 最終更新日 2023-09-06 実験手法 X-RAY DIFFRACTION (2.3 Å) 主引用文献 Substitution of Ala for Tyr567 in RB69 DNA polymerase allows dAMP to be inserted opposite 7,8-dihydro-8-oxoguanine . Biochemistry, 49, 2010
3RJK	Ternary complex of DNA Polymerase Beta with a gapped DNA containing 8odG:dC base pair at primer terminus and dG:dCMP(CF2)PP in the active site 分子名称: 2'-deoxy-5'-O-[(S)-{difluoro[(S)-hydroxy(phosphonooxy)phosphoryl]methyl}(hydroxy)phosphoryl]cytidine, CHLORIDE ION, DNA (5'-D(*CP*CP*GP*AP*CP*GP*(8OG)P*CP*GP*CP*AP*TP*CP*AP*GP*C)-3'), ... 著者 Batra, V.K, Beard, W.A, Wilson, S.H. 登録日 2011-04-15 公開日 2012-01-18 最終更新日 2023-09-13 実験手法 X-RAY DIFFRACTION (2.1 Å) 主引用文献 Binary complex crystal structure of DNA polymerase beta reveals multiple conformations of the templating 8-oxoguanine lesion. Proc.Natl.Acad.Sci.USA, 109, 2012
6IDE	Crystal structure of the Vibrio cholera VqmA-Ligand-DNA complex provides molecular mechanisms for drug design 分子名称: 3,5-dimethylpyrazin-2-ol, DNA (5'-D(*AP*GP*GP*GP*GP*GP*GP*AP*AP*AP*TP*CP*CP*CP*CP*CP*CP*T)-3'), DNA (5'-D(*AP*GP*GP*GP*GP*GP*GP*AP*TP*TP*TP*CP*CP*CP*CP*CP*CP*T)-3'), ... 著者 Wu, H, Li, M.J, Guo, H.J, Zhou, H, Li, B, Xu, Q, Xu, C.Y, Yu, F, He, J.H. 登録日 2018-09-09 公開日 2019-01-16 最終更新日 2024-03-27 実験手法 X-RAY DIFFRACTION (2.51 Å) 主引用文献 Crystal structure of theVibrio choleraeVqmA-ligand-DNA complex provides insight into ligand-binding mechanisms relevant for drug design. J. Biol. Chem., 294, 2019
3GFI	Crystal structure of ST1710 complexed with its promoter DNA 分子名称: 146aa long hypothetical transcriptional regulator, 5'-D(*TP*AP*AP*CP*AP*AP*TP*AP*GP*CP*AP*AP*A)-3', 5'-D(*TP*TP*GP*CP*TP*AP*TP*TP*GP*T)-3' 著者 Kumarevel, T, Tanaka, T, Yokoyama, S, RIKEN Structural Genomics/Proteomics Initiative (RSGI) 登録日 2009-02-26 公開日 2009-08-25 最終更新日 2024-03-20 実験手法 X-RAY DIFFRACTION (2.1 Å) 主引用文献 ST1710-DNA complex crystal structure reveals the DNA binding mechanism of the MarR family of regulators. Nucleic Acids Res., 37, 2009
5E8I	Crystal structure of the DNA binding domain of human transcription factor FLI1 in complex with a 10-mer DNA ACCGGAAGTG 分子名称: CALCIUM ION, DNA (5'-D(*AP*CP*CP*GP*GP*AP*AP*GP*TP*G)-3'), DNA (5'-D(*CP*AP*CP*TP*TP*CP*CP*GP*GP*T)-3'), ... 著者 Hou, C, Tsodikov, O.V. 登録日 2015-10-14 公開日 2015-12-09 最終更新日 2023-09-27 実験手法 X-RAY DIFFRACTION (3.45 Å) 主引用文献 Structural Basis for Dimerization and DNA Binding of Transcription Factor FLI1. Biochemistry, 54, 2015
5EDN	Structure of HOXB13-DNA(TCG) complex 分子名称: 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL, DNA (5'-D(P*GP*GP*AP*CP*CP*TP*CP*GP*TP*AP*AP*AP*AP*CP*AP*CP*AP*AP*C)-3'), DNA (5'-D(P*GP*TP*TP*GP*TP*GP*TP*TP*TP*TP*AP*CP*GP*AP*GP*GP*TP*CP*C)-3'), ... 著者 Morgunova, E, Yin, Y, Jolma, A, Popov, A, Taipale, J. 登録日 2015-10-21 公開日 2016-11-09 最終更新日 2024-01-10 実験手法 X-RAY DIFFRACTION (3.2 Å) 主引用文献 Two distinct DNA sequences recognized by transcription factors represent enthalpy and entropy optima. Elife, 7, 2018
3LZJ	RB69 DNA Polymerase (Y567A) ternary complex with dCTP Opposite 7,8-Dihydro-8-oxoguanine 分子名称: CALCIUM ION, CYTIDINE-5'-TRIPHOSPHATE, DNA (5'-D(*GP*CP*GP*GP*AP*CP*TP*GP*CP*TP*TP*AP*(DOC))-3'), ... 著者 Wang, M, Beckman, J, Blaha, G, Wang, J, Konigsberg, W.H. 登録日 2010-03-01 公開日 2010-05-19 最終更新日 2024-02-21 実験手法 X-RAY DIFFRACTION (2.05 Å) 主引用文献 Substitution of Ala for Tyr567 in RB69 DNA polymerase allows dAMP to be inserted opposite 7,8-dihydro-8-oxoguanine . Biochemistry, 49, 2010
4M9E	Structure of Klf4 zinc finger DNA binding domain in complex with methylated DNA 分子名称: ACETATE ION, DNA (5'-D(*GP*AP*GP*GP*(5CM)P*GP*TP*GP*GP*C)-3'), DNA (5'-D(*GP*CP*CP*AP*(5CM)P*GP*CP*CP*TP*C)-3'), ... 著者 Liu, Y, Olanrewaju, Y.O, Blumenthal, R.M, Zhang, X, Cheng, X. 登録日 2013-08-14 公開日 2014-02-12 最終更新日 2023-09-20 実験手法 X-RAY DIFFRACTION (1.851 Å) 主引用文献 Structural basis for Klf4 recognition of methylated DNA. Nucleic Acids Res., 42, 2014
3EPI	Structure of Human DNA Polymerase Iota complexed with N2-ethylguanine and incoming TTP 分子名称: 5'-D(*DTP*DCP*DTP*(2EG)P*DGP*DGP*DGP*DTP*DCP*DCP*DTP*DAP*DGP*DGP*DAP*DCP*DCP*(DOC))-3', DNA polymerase iota, PHOSPHATE ION, ... 著者 Pence, M.G. 登録日 2008-09-29 公開日 2008-12-16 最終更新日 2023-09-06 実験手法 X-RAY DIFFRACTION (2.9 Å) 主引用文献 Lesion bypass of N2-ethylguanine by human DNA polymerase iota. J.Biol.Chem., 284, 2009
3RMD	Crystal Structure of a replicative DNA polymerase bound to DNA containing Thymine Glycol 分子名称: 2'-DEOXYADENOSINE 5'-TRIPHOSPHATE, DNA (5'-D(*CP*GP*TP*(CTG)P*G*AP*AP*TP*GP*AP*CP*AP*GP*CP*CP*GP*CP*G)-3'), DNA (5'-D(*GP*CP*GP*GP*CP*TP*GP*TP*CP*AP*TP*TP*CP*AP*A)-3'), ... 著者 Aller, P, Duclos, S, Wallace, S.S, Doublie, S. 登録日 2011-04-20 公開日 2011-08-10 最終更新日 2023-09-13 実験手法 X-RAY DIFFRACTION (2.98 Å) 主引用文献 A crystallographic study of the role of sequence context in thymine glycol bypass by a replicative DNA polymerase serendipitously sheds light on the exonuclease complex. J.Mol.Biol., 412, 2011
1IG9	Structure of the Replicating Complex of a Pol Alpha Family DNA Polymerase 分子名称: 5'-D(*AP*CP*AP*GP*GP*TP*AP*AP*GP*CP*AP*GP*TP*CP*CP*GP*CP*G)-3', 5'-D(*GP*CP*GP*GP*AP*CP*TP*GP*CP*TP*TP*AP*CP*(DOC))-3', CALCIUM ION, ... 著者 Franklin, M.C, Wang, J, Steitz, T.A. 登録日 2001-04-17 公開日 2001-06-11 最終更新日 2023-08-16 実験手法 X-RAY DIFFRACTION (2.6 Å) 主引用文献 Structure of the Replicating Complex of a Pol Alpha Family DNA Polymerase Cell(Cambridge,Mass.), 105, 2001
3EPG	Structure of Human DNA Polymerase Iota complexed with N2-ethylguanine 分子名称: 2'-DEOXYCYTIDINE-5'-TRIPHOSPHATE, 5'-D(*DTP*DCP*DTP*(2EG)P*DGP*DGP*DGP*DTP*DCP*DCP*DTP*DAP*DGP*DGP*DAP*DCP*DCP*(DOC))-3', DNA polymerase iota, ... 著者 Pence, M.G. 登録日 2008-09-29 公開日 2008-12-16 最終更新日 2023-09-06 実験手法 X-RAY DIFFRACTION (2.5 Å) 主引用文献 Lesion bypass of N2-ethylguanine by human DNA polymerase iota. J.Biol.Chem., 284, 2009
2F03	Crystal structure of tetrameric restriction endonuclease SfiI in complex with cognate DNA (partial bound form) 分子名称: CALCIUM ION, DNA (5'-D(*AP*AP*TP*AP*GP*GP*CP*CP*TP*TP*GP*TP*TP*GP*GP*CP*CP*AP*CP*AP*T)-3'), DNA (5'-D(*AP*TP*G*TP*GP*GP*CP*CP*AP*AP*CP*AP*AP*GP*GP*CP*CP*TP*AP*TP*T)-3'), ... 著者 Aggarwal, A.K, Vanamee, E.S, Viadiu, H 登録日 2005-11-11 公開日 2007-01-16 最終更新日 2015-09-09 実験手法 X-RAY DIFFRACTION (3.05 Å) 主引用文献 A view of consecutive binding events from structures of tetrameric endonuclease SfiI bound to DNA. Embo J., 24, 2005
1M18	LIGAND BINDING ALTERS THE STRUCTURE AND DYNAMICS OF NUCLEOSOMAL DNA 分子名称: Histone H2A.1, Histone H2B.1, Histone H3.2, ... 著者 Suto, R.K, Edayathumangalam, R.S, White, C.L, Melander, C, Gottesfeld, J.M, Dervan, P.B, Luger, K. 登録日 2002-06-18 公開日 2003-02-18 最終更新日 2024-02-14 実験手法 X-RAY DIFFRACTION (2.45 Å) 主引用文献 Crystal Structures of Nucleosome Core Particles in Complex with Minor Groove DNA-binding Ligands J.Mol.Biol., 326, 2003
1M19	LIGAND BINDING ALTERS THE STRUCTURE AND DYNAMICS OF NUCLEOSOMAL DNA 分子名称: 3-AMINO-(DIMETHYLPROPYLAMINE), 4-AMINO-(1-METHYLIMIDAZOLE)-2-CARBOXYLIC ACID, 4-AMINO-(1-METHYLPYRROLE)-2-CARBOXYLIC ACID, ... 著者 Suto, R.K, Edayathumangalam, R.S, White, C.L, Melander, C, Gottesfeld, J.M, Dervan, P.B, Luger, K. 登録日 2002-06-18 公開日 2003-02-18 最終更新日 2023-11-15 実験手法 X-RAY DIFFRACTION (2.3 Å) 主引用文献 Crystal Structures of Nucleosome Core Particles in Complex with Minor Groove DNA-binding Ligands J.Mol.Biol., 326, 2003

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