PDB: 47011 件ウェブページステータス検索Chemie searchBIRD

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5K5R	AspA-32mer DNA,crystal form 2 分子名称: AspA, DNA (32-MER), PHOSPHATE ION 著者 Schumacher, M. 登録日 2016-05-23 公開日 2016-06-15 最終更新日 2023-09-27 実験手法 X-RAY DIFFRACTION (3.09 Å) 主引用文献 Structures of archaeal DNA segregation machinery reveal bacterial and eukaryotic linkages. Science, 349, 2015
6CRH	Structure of human DNA polymerase beta complexed with 8-ClG in the template base paired with incoming non-hydrolyzable GTP 分子名称: 2'-deoxy-5'-O-[(R)-hydroxy{[(R)-hydroxy(phosphonooxy)phosphoryl]amino}phosphoryl]guanosine, DNA (5'-D(*CP*CP*GP*AP*CP*(CGM)P*TP*CP*GP*CP*AP*TP*CP*AP*GP*C)-3'), DNA (5'-D(*GP*CP*TP*GP*AP*TP*GP*CP*GP*A)-3'), ... 著者 Koag, M.-C, Lee, S. 登録日 2018-03-17 公開日 2019-03-20 最終更新日 2024-03-13 実験手法 X-RAY DIFFRACTION (2.327 Å) 主引用文献 Promutagenicity of 8-Chloroguanine, A Major Inflammation-Induced Halogenated DNA Lesion. Molecules, 24, 2019
2V9W	Complex structure of Sulfolobus solfataricus DPO4 and DNA duplex containing a hydrophobic thymine isostere 2,4-difluorotoluene nucleotide in the template strand 分子名称: 2',3'-DIDEOXYCYTIDINE 5'-TRIPHOSPHATE, 5'-D(*GP*GP*GP*GP*GP*AP*AP*GP*GP*AP *CP*TP*G)-3', 5'-D(*TP*TP*CP*AP*GP*DFTP*AP*GP*TP*CP*CP *TP*TP*CP*CP*CP*CP*C)-3', ... 著者 Irimia, A, Pallan, P.S, Egli, M. 登録日 2007-08-27 公開日 2007-10-30 最終更新日 2023-12-13 実験手法 X-RAY DIFFRACTION (3 Å) 主引用文献 Structure and Activity of Y-Class DNA Polymerase Dpo4 from Sulfolobus Solfataricus with Templates Containing the Hydrophobic Thymine Analog 2,4-Difluorotoluene. J.Biol.Chem., 282, 2007
6DIC	D276G DNA polymerase beta substrate complex with templating cytosine and incoming Fapy-dGTP analog 分子名称: 1-[2-amino-5-(formylamino)-6-oxo-1,6-dihydropyrimidin-4-yl]-2,5-anhydro-1,3-dideoxy-6-O-[(R)-hydroxy{[(R)-hydroxy(phosphonooxy)phosphoryl]oxy}phosphoryl]-D-ribo-hexitol, CALCIUM ION, CHLORIDE ION, ... 著者 Freudenthal, B.D, Smith, M.R, Wilson, S.H, Beard, W.A. 登録日 2018-05-23 公開日 2019-01-30 最終更新日 2023-10-11 実験手法 X-RAY DIFFRACTION (1.992 Å) 主引用文献 A guardian residue hinders insertion of a Fapy•dGTP analog by modulating the open-closed DNA polymerase transition. Nucleic Acids Res., 47, 2019
2V4Q	Post-insertion complex of the Y-family DNA polymerase Dpo4 with M1dG containing template DNA 分子名称: 2'-DEOXYGUANOSINE-5'-TRIPHOSPHATE, 5'-D(*GP*GP*GP*GP*GP*AP*AP*GP*GP*AP *TP*TP*CP*C)-3', 5'-D(*TP*CP*AP*C M1GP*GP*AP*AP*TP*CP*CP *TP*TP*CP*CP*CP*CP*C)-3', ... 著者 Eoff, R.L, Stafford, J.B, Szekely, J, Rizzo, C.J, Egli, M, Guengerich, F.P, Marnett, L.J. 登録日 2008-09-26 公開日 2009-06-16 最終更新日 2023-12-13 実験手法 X-RAY DIFFRACTION (2.6 Å) 主引用文献 Structural and Functional Analysis of Sulfolobus Solfataricus Y-Family DNA Polymerase Dpo4-Catalyzed Bypass of the Malondialdehyde-Deoxyguanosine Adduct. Biochemistry, 48, 2009
2VA3	Complex structure of Sulfolobus solfataricus DPO4 and DNA duplex containing a hydrophobic thymine isostere 2,4-difluorotoluene nucleotide in the template strand 分子名称: 2'-DEOXYGUANOSINE-5'-TRIPHOSPHATE, 5'-D(*GP*GP*GP*GP*GP*AP*AP*GP*GP*AP *CP*TP*A)-3', 5'-D(*TP*TP*CP*AP*DFTP*TP*AP*GP*TP*CP*CP *TP*TP*CP*CP*CP*CP*C)-3', ... 著者 Irimia, A, Pallan, P.S, Egli, M. 登録日 2007-08-28 公開日 2007-10-30 最終更新日 2023-12-13 実験手法 X-RAY DIFFRACTION (2.98 Å) 主引用文献 Structure and Activity of Y-Class DNA Polymerase Dpo4 from Sulfolobus Solfataricus with Templates Containing the Hydrophobic Thymine Analog 2,4-Difluorotoluene. J.Biol.Chem., 282, 2007
1D15	TERNARY INTERACTIONS OF SPERMINE WITH DNA: 4'-EPIADRIAMYCIN AND OTHER DNA: ANTHRACYCLINE COMPLEXES 分子名称: 4'-EPIDOXORUBICIN, DNA (5'-D(*CP*GP*AP*TP*CP*G)-3'), SPERMINE 著者 Williams, L.D, Frederick, C.A, Ughetto, G, Rich, A. 登録日 1990-07-03 公開日 1991-07-15 最終更新日 2024-02-07 実験手法 X-RAY DIFFRACTION (1.5 Å) 主引用文献 Ternary interactions of spermine with DNA: 4'-epiadriamycin and other DNA: anthracycline complexes. Nucleic Acids Res., 18, 1990
7K5Q	Bst DNA polymerase I time-resolved structure, 8 min post dATP addition 分子名称: 2'-DEOXYADENOSINE 5'-TRIPHOSPHATE, DNA (5'-D(P*G*CP*GP*AP*TP*CP*AP*CP*GP*T)-3'), DNA (5'-D(P*GP*TP*AP*CP*GP*TP*GP*AP*TP*CP*GP*CP*A)-3'), ... 著者 Chim, N, Meza, R.A, Trinh, A.M, Chaput, J.C. 登録日 2020-09-17 公開日 2021-03-03 最終更新日 2023-10-18 実験手法 X-RAY DIFFRACTION (2 Å) 主引用文献 Following replicative DNA synthesis by time-resolved X-ray crystallography. Nat Commun, 12, 2021
7K5T	Bst DNA polymerase I time-resolved structure, 25.5 hr post dATP and dCTP addition 分子名称: 2'-DEOXYCYTIDINE-5'-TRIPHOSPHATE, DNA (5'-D(P*CP*GP*AP*TP*CP*AP*CP*GP*TP*A)-3'), DNA (5'-D(P*CP*GP*TP*AP*CP*GP*TP*GP*AP*TP*CP*GP*C)-3'), ... 著者 Chim, N, Meza, R.A, Trinh, A.M, Chaput, J.C. 登録日 2020-09-17 公開日 2021-03-03 最終更新日 2023-10-18 実験手法 X-RAY DIFFRACTION (2.3 Å) 主引用文献 Following replicative DNA synthesis by time-resolved X-ray crystallography. Nat Commun, 12, 2021
2UVR	Crystal structures of mutant Dpo4 DNA polymerases with 8-oxoG containing DNA template-primer constructs 分子名称: 2'-DEOXYGUANOSINE-5'-TRIPHOSPHATE, 5'-D(*GP*GP*GP*GP*GP*AP*AP*GP*GP*AP *TP*TP*CP*C)-3', 5'-D(*TP*CP*AP*CP*8OGP*GP*AP*AP*TP*CP *CP*TP*TP*CP*CP*CP*CP*C)-3', ... 著者 Irimia, A, Egli, M. 登録日 2007-03-13 公開日 2007-05-08 最終更新日 2023-12-13 実験手法 X-RAY DIFFRACTION (2.9 Å) 主引用文献 Hydrogen Bonding of 7,8-Dihydro-8-Oxodeoxyguanosine with a Charged Residue in the Little Finger Domain Determines Miscoding Events in Sulfolobus Solfataricus DNA Polymerase Dpo4. J.Biol.Chem., 282, 2007
7W1M	Cryo-EM structure of human cohesin-CTCF-DNA complex 分子名称: ADENOSINE-5'-DIPHOSPHATE, BERYLLIUM TRIFLUORIDE ION, Cohesin subunit SA-1, ... 著者 Shi, Z.B, Bai, X.C, Yu, H. 登録日 2021-11-19 公開日 2023-05-31 最終更新日 2023-12-13 実験手法 ELECTRON MICROSCOPY (6.5 Å) 主引用文献 CTCF and R-loops are boundaries of cohesin-mediated DNA looping. Mol.Cell, 83, 2023
2ZHG	Crystal structure of SoxR in complex with DNA 分子名称: 2,3-DIHYDROXY-1,4-DITHIOBUTANE, DNA (5'-D(*DGP*DCP*DCP*DTP*DCP*DAP*DAP*DGP*DTP*DTP*DAP*DAP*DCP*DTP*DTP*DGP*DAP*DGP*DGP*DC)-3'), FE2/S2 (INORGANIC) CLUSTER, ... 著者 Watanabe, S, Kita, A, Kobayashi, K, Miki, K. 登録日 2008-02-05 公開日 2008-03-25 最終更新日 2024-03-13 実験手法 X-RAY DIFFRACTION (2.8 Å) 主引用文献 Crystal structure of the [2Fe-2S] oxidative-stress sensor SoxR bound to DNA Proc.Natl.Acad.Sci.Usa, 105, 2008
2UVW	Crystal structures of mutant Dpo4 DNA polymerases with 8-oxoG containing DNA template-primer constructs 分子名称: 2'-DEOXYGUANOSINE-5'-TRIPHOSPHATE, 5'-D(*GP*GP*GP*GP*GP*AP*AP*GP*GP*AP *TP*TP*CP*A)-3', 5'-D(*TP*CP*AP*CP*8OGP*GP*AP*AP*TP*CP *CP*TP*TP*CP*CP*CP*CP*C)-3', ... 著者 Irimia, A, Egli, M. 登録日 2007-03-14 公開日 2007-05-08 最終更新日 2023-12-13 実験手法 X-RAY DIFFRACTION (2.09 Å) 主引用文献 Hydrogen Bonding of 7,8-Dihydro-8-Oxodeoxyguanosine with a Charged Residue in the Little Finger Domain Determines Miscoding Events in Sulfolobus Solfataricus DNA Polymerase Dpo4. J.Biol.Chem., 282, 2007
2UVU	Crystal structures of mutant Dpo4 DNA polymerases with 8-oxoG containing DNA template-primer constructs 分子名称: 2'-DEOXYGUANOSINE-5'-TRIPHOSPHATE, 5'-D(*GP*GP*GP*GP*GP*AP*AP*GP*GP*AP *TP*TP*CP*A)-3', 5'-D(*TP*CP*AP*CP*8OGP*GP*AP*AP*TP*CP *CP*TP*TP*CP*CP*CP*CP*C)-3', ... 著者 Irimia, A, Egli, M. 登録日 2007-03-14 公開日 2007-05-08 最終更新日 2023-12-13 実験手法 X-RAY DIFFRACTION (2.7 Å) 主引用文献 Hydrogen Bonding of 7,8-Dihydro-8-Oxodeoxyguanosine with a Charged Residue in the Little Finger Domain Determines Miscoding Events in Sulfolobus Solfataricus DNA Polymerase Dpo4. J.Biol.Chem., 282, 2007
2UVV	Crystal structures of mutant Dpo4 DNA polymerases with 8-oxoG containing DNA template-primer constructs 分子名称: 2'-DEOXYGUANOSINE-5'-TRIPHOSPHATE, 5'-D(*GP*GP*GP*GP*GP*AP*AP*GP*GP*AP *TP*TP*CP*C)-3', 5'-D(*TP*CP*AP*CP*8OGP*GP*AP*AP*TP*CP *CP*TP*TP*CP*CP*CP*CP*C)-3', ... 著者 Irimia, A, Egli, M. 登録日 2007-03-14 公開日 2007-05-08 最終更新日 2023-12-13 実験手法 X-RAY DIFFRACTION (2.2 Å) 主引用文献 Hydrogen Bonding of 7,8-Dihydro-8-Oxodeoxyguanosine with a Charged Residue in the Little Finger Domain Determines Miscoding Events in Sulfolobus Solfataricus DNA Polymerase Dpo4. J.Biol.Chem., 282, 2007
4IBW	Human p53 core domain with hot spot mutation R273H and second-site suppressor mutation T284R in sequence-specific complex with DNA 分子名称: 1,2-ETHANEDIOL, Cellular tumor antigen p53, DNA (5'-D(*CP*GP*GP*GP*CP*AP*TP*GP*CP*CP*CP*G)-3'), ... 著者 Eldar, A, Rozenberg, H, Diskin-Posner, Y, Shakked, Z. 登録日 2012-12-09 公開日 2013-08-14 最終更新日 2023-09-20 実験手法 X-RAY DIFFRACTION (1.791 Å) 主引用文献 Structural studies of p53 inactivation by DNA-contact mutations and its rescue by suppressor mutations via alternative protein-DNA interactions. Nucleic Acids Res., 41, 2013
3SWP	ANAC019 NAC domain in complex with DNA 分子名称: NAC domain-containing protein 19, oligonucleotide forward, oligonucleotide reverse 著者 Welner, D, Lo Leggio, L. 登録日 2011-07-14 公開日 2012-04-11 最終更新日 2023-09-13 実験手法 X-RAY DIFFRACTION (4.113 Å) 主引用文献 DNA binding by the plant-specific NAC transcription factors in crystal and solution: a firm link to WRKY and GCM transcription factors. Biochem.J., 444, 2012
4IBU	Human p53 core domain with hot spot mutation R273C and second-site suppressor mutation T284R in sequence-specific complex with DNA 分子名称: 1,2-ETHANEDIOL, ACETATE ION, Cellular tumor antigen p53, ... 著者 Eldar, A, Rozenberg, H, Diskin-Posner, Y, Shakked, Z. 登録日 2012-12-09 公開日 2013-08-14 最終更新日 2023-09-20 実験手法 X-RAY DIFFRACTION (1.7 Å) 主引用文献 Structural studies of p53 inactivation by DNA-contact mutations and its rescue by suppressor mutations via alternative protein-DNA interactions. Nucleic Acids Res., 41, 2013
3LWM	Structure of the large fragment of thermus aquaticus DNA polymerase I in complex with a blunt-ended DNA and ddATP 分子名称: 2',3'-dideoxyadenosine triphosphate, ACETATE ION, DNA (5'-D(*GP*AP*CP*CP*AP*CP*GP*GP*CP*GP*CP*(2DA))-3'), ... 著者 Marx, A, Diederichs, K, Obeid, S. 登録日 2010-02-24 公開日 2010-05-05 最終更新日 2023-11-01 実験手法 X-RAY DIFFRACTION (2.186 Å) 主引用文献 Replication through an abasic DNA lesion: structural basis for adenine selectivity Embo J., 29, 2010
4IBV	Human p53 core domain with hot spot mutation R273C and second-site suppressor mutation S240R in sequence-specific complex with DNA 分子名称: 1,2-ETHANEDIOL, Cellular tumor antigen p53, DNA (5'-D(*CP*GP*GP*GP*CP*AP*TP*GP*CP*CP*CP*G)-3'), ... 著者 Eldar, A, Rozenberg, H, Diskin-Posner, Y, Shakked, Z. 登録日 2012-12-09 公開日 2013-08-14 最終更新日 2023-09-20 実験手法 X-RAY DIFFRACTION (2.1 Å) 主引用文献 Structural studies of p53 inactivation by DNA-contact mutations and its rescue by suppressor mutations via alternative protein-DNA interactions. Nucleic Acids Res., 41, 2013
3SWM	The NAC domain of ANAC019 in complex with DNA, gold derivative 分子名称: GOLD ION, NAC domain-containing protein 19, oligonucleotide forward, ... 著者 Welner, D, Lo Leggio, L. 登録日 2011-07-14 公開日 2012-04-11 最終更新日 2023-09-13 実験手法 X-RAY DIFFRACTION (4.25 Å) 主引用文献 DNA binding by the plant-specific NAC transcription factors in crystal and solution: a firm link to WRKY and GCM transcription factors. Biochem.J., 444, 2012
4QW8	TERNARY CRYSTAL STRUCTURES of A Y-FAMILY DNA POLYMERASE DPO4 FROM SULFOLOBUS SOLFATARICUS IN COMPLEX WITH DNA AND D-DCTP 分子名称: 2'-DEOXYCYTIDINE-5'-TRIPHOSPHATE, CALCIUM ION, DNA (5'-D(P*CP*AP*GP*GP*AP*GP*TP*CP*CP*TP*GP*TP*AP*GP*CP*C)-3'), ... 著者 Gaur, V, Suo, Z. 登録日 2014-07-16 公開日 2014-08-27 最終更新日 2024-02-28 実験手法 X-RAY DIFFRACTION (2.29 Å) 主引用文献 Structural and kinetic insights into binding and incorporation of L-nucleotide analogs by a Y-family DNA polymerase. Nucleic Acids Res., 42, 2014
4QWA	TERNARY CRYSTAL STRUCTURES OF A Y-FAMILY DNA POLYMERASE DPO4 FROM SULFOLOBUS SOLFATARICUS in COMPLEX WITH DNA AND (-)3TC-DP 分子名称: CALCIUM ION, DNA (5'-D(P*CP*AP*GP*GP*AP*GP*TP*CP*CP*TP*GP*TP*AP*GP*CP*C)-3'), DNA (5'-D(P*GP*GP*CP*TP*AP*CP*AP*GP*GP*AP*CP*TP*C)-3'), ... 著者 Gaur, V, Suo, Z. 登録日 2014-07-16 公開日 2014-08-27 最終更新日 2024-02-28 実験手法 X-RAY DIFFRACTION (2.2 Å) 主引用文献 Structural and kinetic insights into binding and incorporation of L-nucleotide analogs by a Y-family DNA polymerase. Nucleic Acids Res., 42, 2014
4QW9	TERNARY CRYSTAL STRUCTURES of A Y-FAMILY DNA POLYMERASE DPO4 FROM SULFOLOBUS SOLFATARICUS IN COMPLEX WITH DNA AND (-)FTC-PPNP 分子名称: CALCIUM ION, DNA (5'-D(P*CP*AP*GP*GP*AP*GP*TP*CP*CP*TP*GP*TP*AP*GP*CP*C)-3'), DNA (5'-D(P*GP*GP*CP*TP*AP*CP*AP*GP*GP*AP*CP*TP*C)-3'), ... 著者 Gaur, V, Suo, Z. 登録日 2014-07-16 公開日 2014-08-27 最終更新日 2024-02-28 実験手法 X-RAY DIFFRACTION (2.4 Å) 主引用文献 Structural and kinetic insights into binding and incorporation of L-nucleotide analogs by a Y-family DNA polymerase. Nucleic Acids Res., 42, 2014
4QWE	TERNARY CRYSTAL STRUCTURES of A Y-FAMILY DNA POLYMERASE DPO4 FROM SULFOLOBUS SOLFATARICUS IN COMPLEX WITH DNA AND (-)FTC-DP 分子名称: CALCIUM ION, DNA (5'-D(P*CP*AP*GP*GP*AP*GP*TP*CP*CP*TP*GP*TP*AP*GP*CP*C)-3'), DNA (5'-D(P*GP*GP*CP*TP*AP*CP*AP*GP*GP*AP*CP*TP*C)-3'), ... 著者 Gaur, V, Suo, Z. 登録日 2014-07-16 公開日 2014-08-27 最終更新日 2024-02-28 実験手法 X-RAY DIFFRACTION (2.2 Å) 主引用文献 Structural and kinetic insights into binding and incorporation of L-nucleotide analogs by a Y-family DNA polymerase. Nucleic Acids Res., 42, 2014

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