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

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5H12	Crystal structure of Deep Vent DNA Polymerase 分子名称: Deep Vent DNA Polymerase 著者 Hikida, Y, Kimoto, M, Hirao, I, Yokoyama, S. 登録日 2016-10-07 公開日 2017-01-25 最終更新日 2017-08-30 実験手法 X-RAY DIFFRACTION (2.502 Å) 主引用文献 Crystal structure of Deep Vent DNA polymerase. Biochem. Biophys. Res. Commun., 483, 2017
1JQJ	Mechanism of Processivity Clamp Opening by the Delta Subunit Wrench of the Clamp Loader Complex of E. coli DNA Polymerase III: Structure of the beta-delta complex 分子名称: DNA polymerase III, beta chain, delta subunit 著者 Jeruzalmi, D, Yurieva, O, Zhao, Y, Young, M, Stewart, J, Hingorani, M, O'Donnell, M, Kuriyan, J. 登録日 2001-08-07 公開日 2001-11-07 最終更新日 2024-02-07 実験手法 X-RAY DIFFRACTION (2.9 Å) 主引用文献 Mechanism of processivity clamp opening by the delta subunit wrench of the clamp loader complex of E. coli DNA polymerase III. Cell(Cambridge,Mass.), 106, 2001
1TV9	HUMAN DNA POLYMERASE BETA COMPLEXED WITH NICKED DNA CONTAINING A MISMATCHED TEMPLATE ADENINE AND INCOMING CYTIDINE 分子名称: 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*CP*C)-3', 5'-D(P*GP*TP*CP*GP*G)-3', ... 著者 Krahn, J.M, Beard, W.M, Wilson, S.H. 登録日 2004-06-29 公開日 2004-11-23 最終更新日 2023-08-23 実験手法 X-RAY DIFFRACTION (2 Å) 主引用文献 STRUCTURAL INSIGHTS INTO DNA POLYMERASE BETA DETERRENTS FOR MISINCORPORATION SUPPORT OF AN INDUCED-FIT MECHANISM FOR FIDELITY Structure, 12, 2004
1TVA	HUMAN DNA POLYMERASE BETA COMPLEXED WITH NICKED DNA CONTAINING A MISMATCHED TEMPLATE THYMIDINE AND INCOMING CYTIDINE 分子名称: 5'-D(*CP*CP*GP*AP*CP*TP*GP*CP*GP*CP*AP*TP*CP*AP*GP*C)-3', 5'-D(*GP*CP*TP*GP*AP*TP*GP*CP*GP*CP*C)-3', 5'-D(P*GP*TP*CP*GP*G)-3', ... 著者 Krahn, J.M, Beard, W.A, Wilson, S.H. 登録日 2004-06-29 公開日 2004-11-23 最終更新日 2024-02-14 実験手法 X-RAY DIFFRACTION (2.6 Å) 主引用文献 Structural insights into DNA polymerase Beta deterrents for misincorporation support an induced-fit mechanism for fidelity Structure, 12, 2004
1FGU	SSDNA-BINDING DOMAIN OF THE LARGE SUBUNIT OF REPLICATION PROTEIN A 分子名称: REPLICATION PROTEIN A 70 KDA DNA-BINDING SUBUNIT 著者 Bochkareva, E, Belegu, V, Korolev, S, Bochkarev, A. 登録日 2000-07-28 公開日 2001-02-07 最終更新日 2024-02-07 実験手法 X-RAY DIFFRACTION (2.5 Å) 主引用文献 Structure of the major single-stranded DNA-binding domain of replication protein A suggests a dynamic mechanism for DNA binding. EMBO J., 20, 2001
7T23	E. coli DnaB bound to two DnaG C-terminal domains, ssDNA, ADP and AlF4 分子名称: ADENOSINE-5'-DIPHOSPHATE, DNA (5'-D(*TP*TP*TP*TP*TP*TP*TP*TP*TP*TP*TP*TP*TP*TP*TP*TP*TP*TP*TP*T)-3'), DNA primase, ... 著者 Oakley, A.J, Xu, Z.Q. 登録日 2021-12-02 公開日 2023-01-18 最終更新日 2023-05-31 実験手法 ELECTRON MICROSCOPY (4.2 Å) 主引用文献 Sequence of conformation changes of DnaB helicase during DNA unwinding and priming in Escherichia coli To Be Published
7T22	E. coli DnaB bound to three DnaG C-terminal domains, ssDNA, ADP and AlF4 分子名称: ADENOSINE-5'-DIPHOSPHATE, DNA (5'-D(*TP*TP*TP*TP*TP*TP*TP*TP*TP*TP*TP*TP*TP*TP*TP*TP*TP*TP*TP*T)-3'), DNA primase, ... 著者 Oakley, A.J, Xu, Z.Q. 登録日 2021-12-02 公開日 2023-01-18 最終更新日 2023-05-31 実験手法 ELECTRON MICROSCOPY (4.2 Å) 主引用文献 Sequence of conformation changes of DnaB helicase during DNA unwinding and priming in Escherichia coli To Be Published
7QVB	Crystal structure of the DNA-binding protein DdrC from Deinococcus radiodurans 分子名称: DNA damage response protein C, SULFATE ION 著者 Banneville, A.S, Colletier, J.P, Timmins, J. 登録日 2022-01-20 公開日 2022-06-22 最終更新日 2024-06-19 実験手法 X-RAY DIFFRACTION (2.5 Å) 主引用文献 Structural and functional characterization of DdrC, a novel DNA damage-induced nucleoid associated protein involved in DNA compaction. Nucleic Acids Res., 50, 2022
7QA9	10bp DNA/DNA duplex 分子名称: DNA (5'-D(*CP*CP*AP*TP*TP*AP*TP*AP*GP*C)-3'), DNA (5'-D(*GP*CP*TP*AP*TP*AP*AP*TP*GP*G)-3') 著者 Li, Q, Trajkovski, M, Fan, C, Chen, J, Zhou, Y, Lu, K, Li, H, Su, X, Xi, Z, Plavec, J, Zhou, C. 登録日 2021-11-16 公開日 2022-11-16 最終更新日 2024-06-19 実験手法 SOLUTION NMR 主引用文献 4'-SCF 3 -Labeling Constitutes a Sensitive 19 F NMR Probe for Characterization of Interactions in the Minor Groove of DNA. Angew.Chem.Int.Ed.Engl., 61, 2022
1LQ1	DNA Complexed Structure of the Key Transcription Factor Initiating Development in Sporulation Bacteria 分子名称: 5'-D(*AP*CP*AP*AP*AP*AP*TP*TP*CP*GP*AP*CP*AP*CP*GP*A)-3', 5'-D(*TP*TP*CP*GP*TP*GP*TP*CP*GP*AP*AP*TP*TP*TP*TP*G)-3', Stage 0 sporulation protein A 著者 Zhao, H, Msadek, T, Zapf, J, Madhusudan, Hoch, J.A, Varughese, K.I. 登録日 2002-05-08 公開日 2002-08-23 最終更新日 2024-02-14 実験手法 X-RAY DIFFRACTION (2.3 Å) 主引用文献 DNA complexed structure of the key transcription factor initiating development in sporulating bacteria. Structure, 10, 2002
1ZJN	Human DNA Polymerase beta complexed with DNA containing an A-A mismatched primer terminus with dGTP 分子名称: 2'-DEOXYGUANOSINE-5'-TRIPHOSPHATE, 5'-D(*GP*CP*TP*GP*AP*TP*GP*CP*GP*A)-3', 5'-D(P*GP*TP*CP*GP*G)-3', ... 著者 Batra, V.K, Beard, W.A, Shock, D.D, Pedersen, L.C, Wilson, S.H. 登録日 2005-04-29 公開日 2005-08-16 最終更新日 2023-08-23 実験手法 X-RAY DIFFRACTION (2.61 Å) 主引用文献 Nucleotide-induced DNA polymerase active site motions accommodating a mutagenic DNA intermediate. STRUCTURE, 13, 2005
4FM2	Pyrococcus abyssi B family DNA polymerase (triple mutant) bound to a dsDNA, in edition mode 分子名称: DNA polymerase 1, GLYCEROL, MAGNESIUM ION, ... 著者 Gouge, J, Delarue, M. 登録日 2012-06-15 公開日 2012-08-29 最終更新日 2023-09-13 実験手法 X-RAY DIFFRACTION (2.9 Å) 主引用文献 Molecular Recognition of Canonical and Deaminated Bases by P. abyssi Family B DNA Polymerase. J.Mol.Biol., 423, 2012
6QXT	Cas1-Cas2-Csn2-DNA dimer complex from the Type II-A CRISPR-Cas system 分子名称: CALCIUM ION, CRISPR-associated endonuclease Cas1, CRISPR-associated endoribonuclease Cas2, ... 著者 Wilkinson, M, Drabavicius, G, Silanskas, A, Gasiunas, G, Siksnys, V, Wigley, D.B. 登録日 2019-03-08 公開日 2019-05-08 最終更新日 2024-05-15 実験手法 ELECTRON MICROSCOPY (8.9 Å) 主引用文献 Structure of the DNA-Bound Spacer Capture Complex of a Type II CRISPR-Cas System. Mol.Cell, 75, 2019
4FLZ	Pyrococcus abyssi B family DNA polymerase bound to a dsDNA, in edition mode 分子名称: DNA polymerase 1, GLYCEROL, MAGNESIUM ION, ... 著者 Gouge, J, Delarue, M. 登録日 2012-06-15 公開日 2012-08-29 最終更新日 2020-01-29 実験手法 X-RAY DIFFRACTION (3.2 Å) 主引用文献 Molecular Recognition of Canonical and Deaminated Bases by P. abyssi Family B DNA Polymerase. J.Mol.Biol., 423, 2012
6GIS	Structural basis of human clamp sliding on DNA 分子名称: DNA (5'-D(P*AP*TP*AP*CP*GP*AP*TP*GP*GP*G)-3'), DNA (5'-D(P*CP*CP*CP*AP*TP*CP*GP*TP*AP*T)-3'), Proliferating cell nuclear antigen 著者 De March, M, Merino, N, Barrera-Vilarmau, S, Crehuet, R, Onesti, S, Blanco, F.J, De Biasio, A. 登録日 2018-05-15 公開日 2018-05-30 最終更新日 2024-01-17 実験手法 X-RAY DIFFRACTION (2.82 Å) 主引用文献 Structural basis of human PCNA sliding on DNA. Nat Commun, 8, 2017
8TP8	Structure of the C. crescentus WYL-activator, DriD, bound to ssDNA and cognate DNA 分子名称: DNA (5'-D(*AP*TP*AP*CP*GP*AP*CP*AP*GP*TP*AP*AP*CP*TP*GP*TP*CP*GP*TP*AP*T)-3'), DNA (5'-D(*AP*TP*AP*CP*GP*AP*CP*AP*GP*TP*TP*AP*CP*TP*GP*TP*CP*GP*TP*AP*T)-3'), DNA (5'-D(P*GP*TP*C)-3'), ... 著者 Schumacher, M.A. 登録日 2023-08-04 公開日 2023-11-29 最終更新日 2024-03-13 実験手法 X-RAY DIFFRACTION (2.74 Å) 主引用文献 Structure of the WYL-domain containing transcription activator, DriD, in complex with ssDNA effector and DNA target site. Nucleic Acids Res., 52, 2024
3RMA	Crystal Structure of a replicative DNA polymerase bound to DNA containing Thymine Glycol 分子名称: DNA (5'-D(*CP*GP*AP*(CTG)*GP*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*A)-3'), DNA polymerase 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 2024-02-28 実験手法 X-RAY DIFFRACTION (2.84 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
7FJ2	Structure of FOXM1 homodimer bound to a palindromic DNA site 分子名称: DNA (5'-D(*AP*CP*CP*GP*TP*AP*AP*AP*CP*AP*TP*GP*TP*TP*TP*AP*CP*GP*GP*T)-3'), Forkhead box protein M1 著者 Dai, S.Y, Li, J, Zhang, H.J. 登録日 2021-08-02 公開日 2022-01-26 最終更新日 2023-11-29 実験手法 X-RAY DIFFRACTION (3.098 Å) 主引用文献 Mechanistic Insights into the Preference for Tandem Binding Sites in DNA Recognition by FOXM1. J.Mol.Biol., 434, 2021
2ZKD	Crystal structure of the SRA domain of mouse Np95 in complex with hemi-methylated CpG DNA 分子名称: 1,2-ETHANEDIOL, ACETATE ION, DNA (5'-D(*DCP*DTP*DAP*DCP*DCP*DGP*DGP*DAP*DTP*DTP*DGP*DC)-3'), ... 著者 Arita, K, Ariyoshi, M, Tochio, H, Nakamura, Y, Shirakawa, M. 登録日 2008-03-19 公開日 2008-09-09 最終更新日 2023-11-01 実験手法 X-RAY DIFFRACTION (1.6 Å) 主引用文献 Recognition of hemi-methylated DNA by the SRA protein UHRF1 by a base-flipping mechanism Nature, 455, 2008
1PUE	PU.1 ETS DOMAIN-DNA COMPLEX 分子名称: DNA (5'-D(*AP*AP*AP*AP*AP*GP*GP*GP*GP*AP*AP*GP*TP*GP*GP*G)-3'), DNA (5'-D(*TP*CP*CP*CP*AP*CP*TP*TP*CP*CP*CP*CP*TP*TP*TP*T)-3'), PROTEIN (TRANSCRIPTION FACTOR PU.1 (TF PU.1)) 著者 Kodandapani, R, Pio, F, Ni, C.Z, Piccialli, G, Klemsz, M, McKercher, S, Maki, R.A, Ely, K.R. 登録日 1996-07-08 公開日 1997-02-12 最終更新日 2024-02-14 実験手法 X-RAY DIFFRACTION (2.1 Å) 主引用文献 A new pattern for helix-turn-helix recognition revealed by the PU.1 ETS-domain-DNA complex. Nature, 380, 1996
1SVC	NFKB P50 HOMODIMER BOUND TO DNA 分子名称: DNA (5'-D(*AP*GP*AP*TP*GP*GP*GP*GP*AP*AP*TP*CP*CP*CP*CP*TP*A P*GP*A)-3'), PROTEIN (NUCLEAR FACTOR KAPPA-B (NF-KB)) 著者 Mueller, C.W, Harrison, S.C. 登録日 1995-11-27 公開日 1996-06-10 最終更新日 2024-02-14 実験手法 X-RAY DIFFRACTION (2.6 Å) 主引用文献 Structure of the NF-kappa B p50 homodimer bound to DNA. Nature, 373, 1995
6AMQ	Crystal structure of the DNA polymerase III subunit beta from Enterobacter cloacae 分子名称: DNA polymerase III subunit beta, SULFATE 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 (2.67 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
7Q2X	Cryo-EM structure of clamped S.cerevisiae condensin-DNA complex (Form I) 分子名称: ADENOSINE-5'-DIPHOSPHATE, BERYLLIUM TRIFLUORIDE ION, Condensin complex subunit 1, ... 著者 Lee, B.-G, Rhodes, J, Lowe, J. 登録日 2021-10-26 公開日 2022-03-23 最終更新日 2022-04-13 実験手法 ELECTRON MICROSCOPY (3 Å) 主引用文献 Clamping of DNA shuts the condensin neck gate. Proc.Natl.Acad.Sci.USA, 119, 2022
7Q2Y	Cryo-EM structure of clamped S.cerevisiae condensin-DNA complex (form II) 分子名称: ADENOSINE-5'-DIPHOSPHATE, BERYLLIUM TRIFLUORIDE ION, Condensin complex subunit 1, ... 著者 Lee, B.-G, Rhodes, J, Lowe, J. 登録日 2021-10-26 公開日 2022-03-23 最終更新日 2023-09-13 実験手法 ELECTRON MICROSCOPY (3 Å) 主引用文献 Clamping of DNA shuts the condensin neck gate. Proc.Natl.Acad.Sci.USA, 119, 2022
8AC8	The nucleoprotein complex of Rep protein with DUE ssDNA 分子名称: DNA (5'-D(*AP*TP*TP*TP*TP*TP*AP*TP*A)-3'), Replication initiation protein 著者 Nowacka, M, Wegrzyn, K, Oliwa, M, Konieczny, I. 登録日 2022-07-05 公開日 2023-09-27 最終更新日 2023-11-08 実験手法 X-RAY DIFFRACTION (1.6 Å) 主引用文献 Rep protein accommodates together dsDNA and ssDNA which enables a loop-back mechanism to plasmid DNA replication initiation. Nucleic Acids Res., 51, 2023

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