PDB: 45953 件ウェブページステータス検索Chemie searchBIRD

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3WTS	Crystal structure of the complex comprised of ETS1, RUNX1, CBFBETA, and the tcralpha gene enhancer DNA 分子名称: 5'-D(*AP*GP*AP*GP*GP*AP*TP*GP*TP*GP*GP*CP*TP*TP*C)-3', 5'-D(*GP*AP*AP*GP*CP*CP*AP*CP*AP*TP*CP*CP*TP*CP*T)-3', Core-binding factor subunit beta, ... 著者 Shiina, M, Hamada, K, Ogata, K. 登録日 2014-04-21 公開日 2014-08-13 最終更新日 2023-11-08 実験手法 X-RAY DIFFRACTION (2.35 Å) 主引用文献 A novel allosteric mechanism on protein-DNA interactions underlying the phosphorylation-dependent regulation of Ets1 target gene expressions. J.Mol.Biol., 427, 2015
3WTT	Crystal structure of the complex comprised of phosphorylated ETS1, RUNX1, CBFBETA, and the tcralpha gene enhancer DNA 分子名称: 5'-D(*AP*GP*AP*GP*GP*AP*TP*GP*TP*GP*GP*CP*TP*TP*C)-3', 5'-D(*GP*AP*AP*GP*CP*CP*AP*CP*AP*TP*CP*CP*TP*CP*T)-3', Core-binding factor subunit beta, ... 著者 Shiina, M, Hamada, K, Ogata, K. 登録日 2014-04-21 公開日 2014-08-13 最終更新日 2023-11-08 実験手法 X-RAY DIFFRACTION (2.35 Å) 主引用文献 A novel allosteric mechanism on protein-DNA interactions underlying the phosphorylation-dependent regulation of Ets1 target gene expressions. J.Mol.Biol., 427, 2015
5NBE	[Ru(TAP)2(dppz-11-CN)]2+ bound to d(TCGGCGCCGA)2 分子名称: BARIUM ION, DNA (5'-D(*TP*CP*GP*GP*CP*GP*CP*CP*GP*A)-3'), lambda-[Ru(tap2-dppz-CN)]2+ 著者 McQuaid, K.T, Hall, J.P, Cardin, C.J. 登録日 2017-03-01 公開日 2018-03-21 最終更新日 2024-01-10 実験手法 X-RAY DIFFRACTION (1.51 Å) 主引用文献 X-ray Crystal Structures Show DNA Stacking Advantage of Terminal Nitrile Substitution in Ru-dppz Complexes. Chemistry, 24, 2018
2KFZ	KLENOW FRAGMENT WITH BRIDGING-SULFUR SUBSTRATE AND ZINC ONLY 分子名称: 5'-D(*GP*CP*TP*TP*AP*(US1)P*G)-3', KLENOW FRAGMENT OF DNA POLYMERASE I, MAGNESIUM ION, ... 著者 Brautigam, C.A, Sun, S, Piccirilli, J.A, Steitz, T.A. 登録日 1998-07-02 公開日 1998-11-11 最終更新日 2024-02-21 実験手法 X-RAY DIFFRACTION (2.03 Å) 主引用文献 Structures of normal single-stranded DNA and deoxyribo-3'-S-phosphorothiolates bound to the 3'-5' exonucleolytic active site of DNA polymerase I from Escherichia coli. Biochemistry, 38, 1999
4IOX	The structure of the herpes simplex virus DNA-packaging motor pUL15 C-terminal nuclease domain provides insights into cleavage of concatemeric viral genome precursors 分子名称: ACETATE ION, DI(HYDROXYETHYL)ETHER, TETRAETHYLENE GLYCOL, ... 著者 Selvarajan Sigamani, S, Zhao, H, Kamau, Y, Tang, L. 登録日 2013-01-08 公開日 2013-05-01 最終更新日 2023-09-20 実験手法 X-RAY DIFFRACTION (2.458 Å) 主引用文献 The Structure of the Herpes Simplex Virus DNA-Packaging Terminase pUL15 Nuclease Domain Suggests an Evolutionary Lineage among Eukaryotic and Prokaryotic Viruses. J.Virol., 87, 2013
5TRD	Structure of RbkR (Riboflavin Kinase) from Thermoplasma acidophilum determined in complex with CTP and its cognate DNA operator 分子名称: CYTIDINE-5'-TRIPHOSPHATE, DNA (5'-D(*AP*TP*TP*AP*CP*TP*AP*AP*TP*TP*CP*AP*CP*GP*AP*GP*TP*AP*A)-3'), DNA (5'-D(P*TP*TP*TP*AP*CP*TP*CP*GP*TP*GP*AP*AP*TP*TP*AP*GP*TP*AP*A)-3'), ... 著者 Vetting, M.W, Rodionova, I.A, Li, X, Osterman, A.L, Rodionov, D.A, Almo, S.C. 登録日 2016-10-26 公開日 2016-11-23 最終更新日 2023-10-04 実験手法 X-RAY DIFFRACTION (1.85 Å) 主引用文献 Structure of RbkR (Riboflavin Kinase) from Thermoplasma acidophilum determined in complex with CTP and its cognate DNA operator To be published
2KFN	KLENOW FRAGMENT WITH BRIDGING-SULFUR SUBSTRATE AND MANGANESE 分子名称: 5'-D(*GP*CP*TP*TP*AP*(US1)P*G)-3', KLENOW FRAGMENT OF DNA POLYMERASE I, MAGNESIUM ION, ... 著者 Brautigam, C.A, Sun, S, Piccirilli, J.A, Steitz, T.A. 登録日 1998-07-01 公開日 1998-11-11 最終更新日 2024-02-21 実験手法 X-RAY DIFFRACTION (2.03 Å) 主引用文献 Structures of normal single-stranded DNA and deoxyribo-3'-S-phosphorothiolates bound to the 3'-5' exonucleolytic active site of DNA polymerase I from Escherichia coli. Biochemistry, 38, 1999
4KHY	Ternary complex of rb69 mutant L415F with ribonucleotide at -3 position 分子名称: CALCIUM ION, DNA (5'-D(*GP*CP*GP*GP*AP*CP*TP*GP*CP*TP*TP*AP*CP*C)-3'), DNA polymerase, ... 著者 Clausen, A.R, Pedersen, L.C. 登録日 2013-05-01 公開日 2013-10-09 最終更新日 2023-09-20 実験手法 X-RAY DIFFRACTION (2.25 Å) 主引用文献 Structure-function analysis of ribonucleotide bypass by B family DNA replicases. Proc.Natl.Acad.Sci.USA, 110, 2013
4KI4	Ternary complex of rb69 mutant L415F with ribonucleotides at 0 and -1 position 分子名称: CALCIUM ION, DNA (5'-D(*GP*CP*GP*GP*AP*CP*TP*GP*CP*TP*TP*AP*CP*C)-3'), DNA polymerase, ... 著者 Clausen, A.R, Pedersen, L.C. 登録日 2013-05-01 公開日 2013-10-09 最終更新日 2023-09-20 実験手法 X-RAY DIFFRACTION (2.45 Å) 主引用文献 Structure-function analysis of ribonucleotide bypass by B family DNA replicases. Proc.Natl.Acad.Sci.USA, 110, 2013
1H95	Solution structure of the single-stranded DNA-binding Cold Shock Domain (CSD) of human Y-box protein 1 (YB1) determined by NMR (10 lowest energy structures) 分子名称: Y-BOX BINDING PROTEIN 著者 Kloks, C.P.A.M, Spronk, C.A.E.M, Hoffmann, A, Vuister, G.W, Grzesiek, S, Hilbers, C.W. 登録日 2001-02-23 公開日 2002-02-21 最終更新日 2024-05-15 実験手法 SOLUTION NMR 主引用文献 The Solution Structure and DNA-Binding Properties of the Cold-Shock Domain of the Human Y-Box Protein Yb-1. J.Mol.Biol., 316, 2002
6GY3	Crystal Structure of C. glutamicum AmtR bound to glnA operator DNA 分子名称: AmtR protein, DNA (5'-D(*GP*TP*CP*TP*AP*TP*AP*GP*AP*TP*CP*GP*AP*TP*AP*GP*AP*C)-3'), DNA (5'-D(*GP*TP*CP*TP*AP*TP*CP*GP*AP*TP*CP*TP*AP*TP*AP*GP*AP*C)-3') 著者 Sevvana, M, Muller, Y.A. 登録日 2018-06-28 公開日 2019-07-10 最終更新日 2024-01-17 実験手法 X-RAY DIFFRACTION (2.68 Å) 主引用文献 The role of DNA flexibility in transcription regulator AmtR-DNA interaction To be published
4KHQ	Ternary complex of RB69 mutant L415F wit DUMPNPP 分子名称: 2'-DEOXYURIDINE 5'-ALPHA,BETA-IMIDO-TRIPHOSPHATE, CALCIUM ION, DNA (5'-D(*AP*CP*AP*GP*GP*TP*AP*AP*GP*CP*AP*GP*TP*CP*CP*GP*CP*G)-3'), ... 著者 Clausen, A.R, Pedersen, L.C. 登録日 2013-05-01 公開日 2013-10-09 最終更新日 2024-02-28 実験手法 X-RAY DIFFRACTION (2.186 Å) 主引用文献 Structure-function analysis of ribonucleotide bypass by B family DNA replicases. Proc.Natl.Acad.Sci.USA, 110, 2013
4KHU	Ternary complex of rb69 mutant L415F with a ribonucleotide at -1 position 分子名称: CALCIUM ION, DNA (5'-D(*GP*CP*GP*GP*AP*CP*TP*GP*CP*TP*TP*AP*CP*C)-3'), DNA polymerase, ... 著者 Clausen, A.R, Pedersen, L.C. 登録日 2013-05-01 公開日 2013-10-09 最終更新日 2024-02-28 実験手法 X-RAY DIFFRACTION (2.05 Å) 主引用文献 Structure-function analysis of ribonucleotide bypass by B family DNA replicases. Proc.Natl.Acad.Sci.USA, 110, 2013
1CMO	IMMUNOGLOBULIN MOTIF DNA-RECOGNITION AND HETERODIMERIZATION FOR THE PEBP2/CBF RUNT-DOMAIN 分子名称: POLYOMAVIRUS ENHANCER BINDING PROTEIN 2 著者 Nagata, T, Gupta, V, Sorce, D, Kim, W.Y, Sali, A, Chait, B.T, Shigesada, K, Ito, Y, Werner, M.H. 登録日 1999-05-11 公開日 2000-01-05 最終更新日 2023-12-27 実験手法 SOLUTION NMR 主引用文献 Immunoglobulin motif DNA recognition and heterodimerization of the PEBP2/CBF Runt domain. Nat.Struct.Biol., 6, 1999
1D63	CRYSTAL STRUCTURE OF A BERENIL-D(CGCAAATTTGCG) COMPLEX; AN EXAMPLE OF DRUG-DNA RECOGNITION BASED ON SEQUENCE-DEPENDENT STRUCTURAL FEATURES 分子名称: BERENIL, DNA (5'-D(*CP*GP*CP*AP*AP*AP*TP*TP*TP*GP*CP*G)-3'), MAGNESIUM ION 著者 Brown, D.G, Sanderson, M.R, Garman, E, Neidle, S. 登録日 1992-03-02 公開日 1993-01-15 最終更新日 2024-02-07 実験手法 X-RAY DIFFRACTION (2 Å) 主引用文献 Crystal structure of a berenil-d(CGCAAATTTGCG) complex. An example of drug-DNA recognition based on sequence-dependent structural features. J.Mol.Biol., 226, 1992
2EZV	Crystal structure of tetrameric restriction endonuclease SfiI bound to cognate DNA. 分子名称: 5'-D(*AP*GP*GP*CP*CP*TP*TP*GP*TP*TP*GP*GP*CP*CP*A)-3', 5'-D(*TP*GP*GP*CP*CP*AP*AP*CP*AP*AP*GP*GP*CP*CP*T)-3', CALCIUM ION, ... 著者 Aggarwal, A.K, Vanamee, E.S, Viadiu, H. 登録日 2005-11-10 公開日 2006-01-24 最終更新日 2024-02-14 実験手法 X-RAY DIFFRACTION (2.4 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
4KHS	Ternary complex of RB69 mutant L415F with a ribonucleotide at 0 position 分子名称: CALCIUM ION, CHLORIDE ION, DNA (5'-D(*GP*CP*GP*GP*AP*CP*TP*GP*CP*TP*TP*AP*CP*C)-3'), ... 著者 Clausen, A.R, Pedersen, L.C. 登録日 2013-05-01 公開日 2013-10-09 最終更新日 2024-02-28 実験手法 X-RAY DIFFRACTION (2.12 Å) 主引用文献 Structure-function analysis of ribonucleotide bypass by B family DNA replicases. Proc.Natl.Acad.Sci.USA, 110, 2013
4O0I	Crystal structure of fragment DNA polymerase I from Bacillus stearothermophilus with 2'-MeSe-arabino-guanosine derivatized DNA 分子名称: 5'-D(*C*(1TW)P*CP*GP*AP*AP*TP*TP*CP*GP*CP*G)-3', DNA polymerase I, GLYCEROL, ... 著者 Jiang, S, Gan, J, Sun, H, Huang, Z. 登録日 2013-12-13 公開日 2014-12-17 最終更新日 2023-09-20 実験手法 X-RAY DIFFRACTION (2.203 Å) 主引用文献 Crystal structure of fragment DNA polymerase I from Bacillus stearothermophilus with 2'-MeSe-arabino-guanosine derivatized DNA TO BE PUBLISHED
4P0Z	Structure of the double stranded DNA binding type IV secretion protein TraN from Enterococcus 分子名称: AM32 著者 Goessweiner-mohr, N, Fercher, C, Keller, W. 登録日 2014-02-23 公開日 2014-07-30 最終更新日 2023-12-27 実験手法 X-RAY DIFFRACTION (1.35 Å) 主引用文献 Structure of the double-stranded DNA-binding type IV secretion protein TraN from Enterococcus. Acta Crystallogr.,Sect.D, 70, 2014
6AMS	Crystal structure of the DNA polymerase III subunit beta from Pseudomonas aeruginosa 分子名称: Beta sliding clamp, PHOSPHATE ION 著者 McGrath, A.E, Oakley, A.J. 登録日 2017-08-11 公開日 2017-11-01 最終更新日 2023-10-04 実験手法 X-RAY DIFFRACTION (2.39 Å) 主引用文献 Crystal structures and biochemical characterization of DNA sliding clamps from three Gram-negative bacterial pathogens. J. Struct. Biol., 204, 2018
7B5Y	S. agalactiae BusR in complex with its busAB-promotor DNA 分子名称: (2R,3R,3aS,5R,7aR,9R,10R,10aS,12R,14aR)-2,9-bis(6-amino-9H-purin-9-yl)octahydro-2H,7H-difuro[3,2-d:3',2'-j][1,3,7,9,2,8 ]tetraoxadiphosphacyclododecine-3,5,10,12-tetrol 5,12-dioxide, BusR binding site in the busAB promotor. strand1, BusR binding site in the busAB promotor. strand2, ... 著者 Bandera, A.M, Witte, G. 登録日 2020-12-07 公開日 2021-08-11 最終更新日 2024-07-10 実験手法 ELECTRON MICROSCOPY (7.1 Å) 主引用文献 BusR senses bipartite DNA binding motifs by a unique molecular ruler architecture. Nucleic Acids Res., 49, 2021
4XZF	Crystal structure of HIRAN domain of human HLTF in complex with DNA 分子名称: (DA)(DC)(DC)(DG)(DC)(DC)(DG)(DG)(DG)(DT)(DG)(DC)(DC), Helicase-like transcription factor 著者 Hishiki, A, Hashimoto, H. 登録日 2015-02-04 公開日 2015-04-15 最終更新日 2024-03-20 実験手法 X-RAY DIFFRACTION (1.38 Å) 主引用文献 Structure of a Novel DNA-binding Domain of Helicase-like Transcription Factor (HLTF) and Its Functional Implication in DNA Damage Tolerance J.Biol.Chem., 290, 2015
5F9L	CRYSTAL STRUCTURE OF HUMAN DNA POLYMERASE ETA INSERTING dAMPNPP ACROSS A DNA TEMPLATE CONTAINING 1,N2-ETHENODEOXYGUANOSINE LESION 分子名称: 2'-deoxy-5'-O-[(R)-hydroxy{[(R)-hydroxy(phosphonooxy)phosphoryl]amino}phosphoryl]adenosine, DNA (5'-D(*AP*GP*CP*GP*TP*CP*AP*T)-3'), DNA (5'-D(*CP*AP*TP*(GNE)P*AP*TP*GP*AP*CP*GP*CP*T)-3'), ... 著者 Patra, A, Egli, M. 登録日 2015-12-09 公開日 2016-12-21 最終更新日 2023-09-27 実験手法 X-RAY DIFFRACTION (2.592 Å) 主引用文献 Bypass of the 1, N2-Ethenodeoxyguanosine Lesion by Human DNA Polymerase Eta To Be Published
3Q01	An induced fit mechanism regulates p53 DNA binding kinetics to confer sequence specificity 分子名称: Cellular tumor antigen p53, ZINC ION 著者 Petty, T.J, Halazonetis, T.D. 登録日 2010-12-15 公開日 2011-05-11 最終更新日 2023-09-13 実験手法 X-RAY DIFFRACTION (2.1 Å) 主引用文献 An induced fit mechanism regulates p53 DNA binding kinetics to confer sequence specificity. Embo J., 30, 2011
1MBE	MOUSE C-MYB DNA-BINDING DOMAIN REPEAT 1 分子名称: MYB PROTO-ONCOGENE PROTEIN 著者 Ogata, K, Morikawa, S, Nakamura, H, Hojo, H, Yoshimura, S, Zhang, R, Aimoto, S, Ametani, Y, Hirata, Z, Sarai, A, Ishii, S, Nishimura, Y. 登録日 1995-05-19 公開日 1995-07-31 最終更新日 2024-06-05 実験手法 SOLUTION NMR 主引用文献 Comparison of the free and DNA-complexed forms of the DNA-binding domain from c-Myb. Nat.Struct.Biol., 2, 1995

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