PDB: 46200 件ウェブページステータス検索Chemie searchBIRD

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2IH2	Crystal structure of the adenine-specific DNA methyltransferase M.TaqI complexed with the cofactor analog AETA and a 10 bp DNA containing 5-methylpyrimidin-2(1H)-one at the target base partner position 分子名称: 5'-D(*GP*AP*CP*AP*(5PY)P*CP*GP*(6MA)P*AP*C)-3', 5'-D(*GP*TP*TP*CP*GP*AP*TP*GP*TP*C)-3', 5'-DEOXY-5'-[2-(AMINO)ETHYLTHIO]ADENOSINE, ... 著者 Lenz, T, Scheidig, A.J, Weinhold, E. 登録日 2006-09-25 公開日 2007-11-13 最終更新日 2023-08-30 実験手法 X-RAY DIFFRACTION (1.61 Å) 主引用文献 Influence of the target base partner on the methylation rate of the adenine-specific DNA methyltransferase M.TaqI To be Published
8Q5O	N-terminal domain of restriction endonuclease Eco15I with tetra-methylated target DNA. 分子名称: CALCIUM ION, DNA (5'-D(*CP*TP*GP*(5CM)P*TP*GP*(5CM)P*TP*C)-3'), DNA (5'-D(*GP*AP*GP*(5CM)P*AP*GP*(5CM)P*AP*G)-3'), ... 著者 Rafalski, D, Krakowska, K, Bochtler, M. 登録日 2023-08-09 公開日 2024-07-17 最終更新日 2024-09-04 実験手法 X-RAY DIFFRACTION (2.33 Å) 主引用文献 Structural analysis of the BisI family of modification dependent restriction endonucleases. Nucleic Acids Res., 52, 2024
2IH5	Crystal structure of the adenine-specific DNA methyltransferase M.TaqI complexed with the cofactor analog AETA and a 10 bp DNA containing an abasic site analog at the target base partner position 分子名称: 5'-D(*GP*AP*CP*AP*(3DR)P*CP*GP*(6MA)P*AP*C)-3', 5'-D(*GP*TP*TP*CP*GP*AP*TP*GP*TP*C)-3', 5'-DEOXY-5'-[2-(AMINO)ETHYLTHIO]ADENOSINE, ... 著者 Lenz, T, Scheidig, A.J, Weinhold, E. 登録日 2006-09-25 公開日 2007-11-13 最終更新日 2023-08-30 実験手法 X-RAY DIFFRACTION (1.8 Å) 主引用文献 Influence of the target base partner on the methylation rate of the adenine-specific DNA methyltransferase M.TaqI To be Published
2RTU	Solution structure of oxidized human HMGB1 A box 分子名称: High mobility group protein B1 著者 Jing, W, Tochio, N, Tate, S. 登録日 2013-09-12 公開日 2014-03-05 最終更新日 2023-06-14 実験手法 SOLUTION NMR 主引用文献 Redox-sensitive structural change in the A-domain of HMGB1 and its implication for the binding to cisplatin modified DNA. Biochem.Biophys.Res.Commun., 441, 2013
8JMK	Structure of Helicobacter pylori Soj mutant, D41A bound to DNA 分子名称: ADENOSINE-5'-TRIPHOSPHATE, DNA (5'-D(P*AP*GP*GP*GP*TP*GP*TP*TP*CP*CP*AP*CP*GP*TP*GP*AP*AP*AP*CP*AP*GP*GP*GP*A)-3'), DNA (5'-D(P*TP*CP*CP*CP*TP*GP*TP*TP*TP*CP*AP*CP*GP*TP*GP*GP*AP*AP*CP*AP*CP*CP*CP*T)-3'), ... 著者 Wu, C.T, Chu, C.H, Sun, Y.J. 登録日 2023-06-05 公開日 2024-05-29 最終更新日 2024-07-24 実験手法 X-RAY DIFFRACTION (2.7 Å) 主引用文献 Insights into the molecular mechanism of ParABS system in chromosome partition by HpParA and HpParB. Nucleic Acids Res., 52, 2024
8RPX	NhoI restriction endonuclease in complex with quadruply methylated DNA target 分子名称: 1,2-ETHANEDIOL, CALCIUM ION, DNA (5'-D(*CP*TP*GP*(5CM)P*AP*GP*(5CM)P*TP*C)-3'), ... 著者 Rafalski, D, Krakowska, K, Gilski, M, Bochtler, M. 登録日 2024-01-17 公開日 2024-07-17 最終更新日 2024-09-04 実験手法 X-RAY DIFFRACTION (1.81 Å) 主引用文献 Structural analysis of the BisI family of modification dependent restriction endonucleases. Nucleic Acids Res., 52, 2024
8HHM	Cryo-EM structure of the Cas12m2-crRNA-target DNA ternary complex intermediate state 分子名称: Cas12m2, DNA (36-MER), MAGNESIUM ION, ... 著者 Omura, N.S, Nakagawa, R, Wu, Y.W, Sudfeld, C, Warren, V.R, Hirano, H, Kusakizako, T, Kise, Y, Lebbink, H.G.J, Itoh, Y, Oost, V.D.J, Nureki, O. 登録日 2022-11-16 公開日 2023-04-12 最終更新日 2024-05-22 実験手法 ELECTRON MICROSCOPY (3.08 Å) 主引用文献 Mechanistic and evolutionary insights into a type V-M CRISPR-Cas effector enzyme. Nat.Struct.Mol.Biol., 30, 2023
2IH4	Crystal structure of the adenine-specific DNA methyltransferase M.TaqI complexed with the cofactor analog AETA and a 10 bp DNA containing pyrrolo-dC at the target base partner position 分子名称: 5'-D(*GP*AP*CP*AP*(4PC)P*CP*GP*(6MA)P*AP*C)-3', 5'-D(*GP*TP*TP*CP*GP*AP*TP*GP*TP*C)-3', 5'-DEOXY-5'-[2-(AMINO)ETHYLTHIO]ADENOSINE, ... 著者 Lenz, T, Scheidig, A.J, Weinhold, E. 登録日 2006-09-25 公開日 2007-11-13 最終更新日 2023-08-30 実験手法 X-RAY DIFFRACTION (2.1 Å) 主引用文献 Influence of the target base partner on the methylation rate of the adenine-specific DNA methyltransferase M.TaqI To be Published
4RSI	Yeast Smc2-Smc4 hinge domain with extended coiled coils 分子名称: PHOSPHATE ION, Structural maintenance of chromosomes protein 2, Structural maintenance of chromosomes protein 4 著者 Soh, Y.M, Shin, H.C, Oh, B.H. 登録日 2014-11-08 公開日 2014-12-31 最終更新日 2024-02-28 実験手法 X-RAY DIFFRACTION (2.9 Å) 主引用文献 Molecular Basis for SMC Rod Formation and Its Dissolution upon DNA Binding. Mol.Cell, 57, 2015
2VKC	Solution structure of the B3BP Smr domain 分子名称: NEDD4-BINDING PROTEIN 2 著者 Diercks, T, Ab, E, Daniels, M.A, deJong, R.N, Besseling, R, Kaptein, R, Folkers, G.E. 登録日 2007-12-18 公開日 2008-10-14 最終更新日 2024-05-15 実験手法 SOLUTION NMR 主引用文献 Solution Structure and Characterization of the DNA- Binding Activity of the B3BP-Smr Domain. J.Mol.Biol., 383, 2008
7MWI	Crystal structure of human BAZ2A 分子名称: Bromodomain adjacent to zinc finger domain protein 2A, UNKNOWN ATOM OR ION 著者 Liu, K, Dong, A, Li, Y, Loppnau, P, Edwards, A.M, Arrowsmith, C.H, Min, J, Structural Genomics Consortium (SGC) 登録日 2021-05-17 公開日 2021-12-29 最終更新日 2023-10-18 実験手法 X-RAY DIFFRACTION (1.8 Å) 主引用文献 Structural basis of the TAM domain of BAZ2A in binding to DNA or RNA independent of methylation status. J.Biol.Chem., 297, 2021
6BZG	Structure of S. cerevisiae Zip2:Spo16 complex, P212121 form 分子名称: HEXAETHYLENE GLYCOL, Protein ZIP2, SULFATE ION, ... 著者 Arora, K, Corbett, K.D. 登録日 2017-12-23 公開日 2018-02-14 最終更新日 2024-03-13 実験手法 X-RAY DIFFRACTION (2.13 Å) 主引用文献 The conserved XPF:ERCC1-like Zip2:Spo16 complex controls meiotic crossover formation through structure-specific DNA binding. Nucleic Acids Res., 47, 2019
4RSJ	Pyrococcus furiosus Smc hinge domain with an extended coiled coil 分子名称: Chromosome partition protein Smc 著者 Soh, Y.M, Shin, H.C, Oh, B.H. 登録日 2014-11-08 公開日 2014-12-31 最終更新日 2023-09-20 実験手法 X-RAY DIFFRACTION (3.5 Å) 主引用文献 Molecular Basis for SMC Rod Formation and Its Dissolution upon DNA Binding. Mol.Cell, 57, 2015
8T5Y	Structure of Rhodococcus sp. USK13 DarR(K44A)-cAMP complex 分子名称: ADENOSINE-3',5'-CYCLIC-MONOPHOSPHATE, DarR 著者 Schumacher, M.A. 登録日 2023-06-14 公開日 2023-11-01 最終更新日 2023-11-22 実験手法 X-RAY DIFFRACTION (1.44 Å) 主引用文献 Structures of the DarR transcription regulator reveal unique modes of second messenger and DNA binding. Nat Commun, 14, 2023
8SUA	Structure of M. baixiangningiae DarR-ligand complex 分子名称: 3-azanyl-3-(hydroxymethyl)-1,5,7,11-tetraoxa-6$l^{4}-boraspiro[5.5]undecan-9-ol, DarR 著者 Schumacher, M.A. 登録日 2023-05-11 公開日 2023-11-01 最終更新日 2023-11-22 実験手法 X-RAY DIFFRACTION (1.6 Å) 主引用文献 Structures of the DarR transcription regulator reveal unique modes of second messenger and DNA binding. Nat Commun, 14, 2023
6C5D	N-terminal domain of Helicobacter pylori LlaJI.R1 分子名称: LlaJI.R1 著者 Hosford, C.J, Chappie, J.S. 登録日 2018-01-16 公開日 2018-06-27 最終更新日 2018-08-08 実験手法 X-RAY DIFFRACTION (1.97 Å) 主引用文献 The crystal structure of theHelicobacter pyloriLlaJI.R1 N-terminal domain provides a model for site-specific DNA binding. J. Biol. Chem., 293, 2018
5FQ5	Crystal structure of Cas9-sgRNA-DNA complex solved by native SAD phasing 分子名称: CRISPR-ASSOCIATED ENDONUCLEASE CAS9/CSN1, MAGNESIUM ION, NON-TARGET DNA STRAND, ... 著者 Olieric, V, Weinert, T, Finke, A, Anders, C, Jinek, M, Wang, M. 登録日 2015-12-07 公開日 2016-03-23 最終更新日 2024-05-08 実験手法 X-RAY DIFFRACTION (2.136 Å) 主引用文献 Data-Collection Strategy for Challenging Native Sad Phasing. Acta Crystallogr.,Sect.D, 72, 2016
5VMV	Kaiso (ZBTB33) zinc finger DNA binding domain in complex with its double CpG-methylated DNA consensus binding site 分子名称: CHLORIDE ION, DNA (5'-D(*TP*GP*CP*TP*TP*CP*TP*(5CM)P*GP*(5CM)P*GP*AP*GP*AP*AP*GP*CP*A)-3'), Transcriptional regulator Kaiso, ... 著者 Nikolova, E.N, Stanfield, R.L, Martinez-Yamout, M.A, Dyson, H.J, Wright, P.E. 登録日 2017-04-28 公開日 2018-04-04 最終更新日 2023-10-04 実験手法 X-RAY DIFFRACTION (2.313 Å) 主引用文献 CH···O Hydrogen Bonds Mediate Highly Specific Recognition of Methylated CpG Sites by the Zinc Finger Protein Kaiso. Biochemistry, 57, 2018
4TZ0	DEAD-box helicase Mss116 bound to ssRNA and GDP-BeF 分子名称: ATP-dependent RNA helicase MSS116, mitochondrial, BERYLLIUM TRIFLUORIDE ION, ... 著者 Mallam, A.L, Sidote, D.J, Lambowitz, A.M. 登録日 2014-07-09 公開日 2014-12-31 最終更新日 2023-12-27 実験手法 X-RAY DIFFRACTION (2.35 Å) 主引用文献 Molecular insights into RNA and DNA helicase evolution from the determinants of specificity for a DEAD-box RNA helicase. Elife, 3, 2014
4TYY	DEAD-box helicase Mss116 bound to ssRNA and CDP-BeF 分子名称: ATP-dependent RNA helicase MSS116, mitochondrial, BERYLLIUM TRIFLUORIDE ION, ... 著者 Mallam, A.L, Sidote, D.J, Lambowitz, A.M. 登録日 2014-07-09 公開日 2014-12-31 最終更新日 2023-09-27 実験手法 X-RAY DIFFRACTION (2.74 Å) 主引用文献 Molecular insights into RNA and DNA helicase evolution from the determinants of specificity for a DEAD-box RNA helicase. Elife, 3, 2014
4TYW	DEAD-box helicase Mss116 bound to ssRNA and ADP-BeF 分子名称: ADENOSINE-5'-DIPHOSPHATE, ATP-dependent RNA helicase MSS116, mitochondrial, ... 著者 Mallam, A.L, Sidote, D.J, Lambowitz, A.M. 登録日 2014-07-09 公開日 2014-12-31 最終更新日 2023-09-27 実験手法 X-RAY DIFFRACTION (2.197 Å) 主引用文献 Molecular insights into RNA and DNA helicase evolution from the determinants of specificity for a DEAD-box RNA helicase. Elife, 3, 2014
4TZ6	DEAD-box helicase Mss116 bound to ssRNA and UDP-BeF 分子名称: ATP-dependent RNA helicase MSS116, mitochondrial, BERYLLIUM TRIFLUORIDE ION, ... 著者 Mallam, A.L, Sidote, D.J, Lambowitz, A.M. 登録日 2014-07-09 公開日 2015-01-28 最終更新日 2023-09-27 実験手法 X-RAY DIFFRACTION (3.209 Å) 主引用文献 Molecular insights into RNA and DNA helicase evolution from the determinants of specificity for a DEAD-box RNA helicase. Elife, 3, 2014
8P9O	PCNA from Chaetomium thermophilum in complex with PolD3 peptide 分子名称: Proliferating cell nuclear antigen, Synthetic peptide corresponding to amino acids 437 to 451 of PolD3 from Chaetomium thermophilum 著者 Alphey, M.S, Wolford, C.B, MacNeill, S.A. 登録日 2023-06-06 公開日 2023-12-13 最終更新日 2024-01-24 実験手法 X-RAY DIFFRACTION (2.45 Å) 主引用文献 Canonical binding of Chaetomium thermophilum DNA polymerase delta / zeta subunit PolD3 and flap endonuclease Fen1 to PCNA. Front Mol Biosci, 10, 2023
6TNG	Structure of FANCD2 in complex with FANCI 分子名称: Fanconi anemia complementation group I, Uncharacterized protein 著者 Alcon, P, Shakeel, S, Passmore, L.A. 登録日 2019-12-07 公開日 2020-02-19 最終更新日 2024-05-22 実験手法 ELECTRON MICROSCOPY (4.1 Å) 主引用文献 FANCD2-FANCI is a clamp stabilized on DNA by monoubiquitination of FANCD2 during DNA repair. Nat.Struct.Mol.Biol., 27, 2020
6BHV	Human PARP-1 bound to NAD+ analog benzamide adenine dinucleotide (BAD) 分子名称: Poly [ADP-ribose] polymerase 1, [(2R,3S,4R,5R)-5-(6-amino-9H-purin-9-yl)-3,4-dihydroxytetrahydrofuran-2-yl]methyl [(2R,3S,4R,5S)-5-(3-carbamoylphenyl)-3,4-dihydroxytetrahydrofuran-2-yl]methyl dihydrogen diphosphate (non-preferred name) 著者 Pascal, J.M, Langelier, M.F. 登録日 2017-10-31 公開日 2018-02-28 最終更新日 2023-10-04 実験手法 X-RAY DIFFRACTION (2.3 Å) 主引用文献 NAD+analog reveals PARP-1 substrate-blocking mechanism and allosteric communication from catalytic center to DNA-binding domains. Nat Commun, 9, 2018

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