PDB: 13252 件ウェブページステータス検索Chemie searchBIRD

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3C2M	Ternary complex of DNA POLYMERASE BETA with a G:dAPCPP mismatch in the active site 分子名称: 1,2-ETHANEDIOL, 2'-deoxy-5'-O-[(S)-hydroxy{[(S)-hydroxy(phosphonooxy)phosphoryl]methyl}phosphoryl]adenosine, DNA (5'-D(*DCP*DCP*DGP*DAP*DCP*DGP*DGP*DCP*DGP*DCP*DAP*DTP*DCP*DAP*DGP*DC)-3'), ... 著者 Batra, V.K, Beard, W.A, Shock, D.D, Pedersen, L.C, Wilson, S.H. 登録日 2008-01-25 公開日 2008-05-20 最終更新日 2023-08-30 実験手法 X-RAY DIFFRACTION (2.15 Å) 主引用文献 Structures of DNA polymerase beta with active-site mismatches suggest a transient abasic site intermediate during misincorporation. Mol.Cell, 30, 2008
5HZD	RNA Editing TUTase 1 from Trypanosoma brucei 分子名称: 3' terminal uridylyl transferase, CHLORIDE ION, SULFATE ION, ... 著者 Thore, S, Rajappa, L.T. 登録日 2016-02-02 公開日 2016-10-26 最終更新日 2024-01-10 実験手法 X-RAY DIFFRACTION (1.6 Å) 主引用文献 RNA Editing TUTase 1: structural foundation of substrate recognition, complex interactions and drug targeting. Nucleic Acids Res., 44, 2016
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
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
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
7KQN	Ternary complex of TERT (telomerase reverse transcriptase) with RNA template, DNA primer, an incoming dGTP and a downstream hybrid duplex 分子名称: 1,2-ETHANEDIOL, 2'-DEOXYGUANOSINE-5'-TRIPHOSPHATE, 2-(N-MORPHOLINO)-ETHANESULFONIC ACID, ... 著者 Choi, W.S, Weng, P.J, Yang, W. 登録日 2020-11-17 公開日 2022-03-23 最終更新日 2023-10-18 実験手法 X-RAY DIFFRACTION (2.02 Å) 主引用文献 Flexibility of telomerase in binding the RNA template and DNA telomeric repeat. Proc.Natl.Acad.Sci.USA, 119, 2022
3C2L	Ternary complex of DNA POLYMERASE BETA with a C:DAPCPP mismatch in the active site 分子名称: 2'-deoxy-5'-O-[(S)-hydroxy{[(S)-hydroxy(phosphonooxy)phosphoryl]methyl}phosphoryl]adenosine, DNA (5'-D(*DCP*DCP*DGP*DAP*DCP*DCP*DGP*DCP*DGP*DCP*DAP*DTP*DCP*DAP*DGP*DC)-3'), DNA (5'-D(*DGP*DCP*DTP*DGP*DAP*DTP*DGP*DCP*DGP*DC)-3'), ... 著者 Batra, V.K, Beard, W.A, Shock, D.D, Pedersen, L.C, Wilson, S.H. 登録日 2008-01-25 公開日 2008-05-20 最終更新日 2023-08-30 実験手法 X-RAY DIFFRACTION (2.6 Å) 主引用文献 Structures of DNA polymerase beta with active-site mismatches suggest a transient abasic site intermediate during misincorporation. Mol.Cell, 30, 2008
5I49	RNA Editing TUTase 1 from Trypanosoma brucei in complex with UTP analog UMPNPP 分子名称: 3' terminal uridylyl transferase, 5'-O-[(S)-hydroxy{[(S)-hydroxy(phosphonooxy)phosphoryl]amino}phosphoryl]uridine, MAGNESIUM ION, ... 著者 Thore, S, Rajappa, L.T. 登録日 2016-02-11 公開日 2016-11-09 最終更新日 2024-01-10 実験手法 X-RAY DIFFRACTION (1.8 Å) 主引用文献 RNA Editing TUTase 1: structural foundation of substrate recognition, complex interactions and drug targeting. Nucleic Acids Res., 44, 2016
5IDO	RNA Editing TUTase 1 from Trypanosoma brucei in complex with UTP 分子名称: 3' terminal uridylyl transferase, MAGNESIUM ION, URIDINE 5'-TRIPHOSPHATE, ... 著者 Thore, S, Rajappa, L.T. 登録日 2016-02-24 公開日 2016-10-26 最終更新日 2024-01-10 実験手法 X-RAY DIFFRACTION (2.2 Å) 主引用文献 RNA Editing TUTase 1: structural foundation of substrate recognition, complex interactions and drug targeting. Nucleic Acids Res., 44, 2016
3MBY	Ternary complex of DNA Polymerase BETA with template base A and 8oxodGTP in the active site with a dideoxy terminated primer 分子名称: 8-OXO-2'-DEOXYGUANOSINE-5'-TRIPHOSPHATE, CHLORIDE ION, DNA (5'-D(*CP*CP*GP*AP*CP*AP*GP*CP*GP*CP*AP*TP*CP*AP*GP*C)-3'), ... 著者 Batra, V.K, Beard, W.A, Hou, E.W, Pedersen, L.C, Prasad, R, Wilson, S.H. 登録日 2010-03-26 公開日 2010-06-09 最終更新日 2023-09-06 実験手法 X-RAY DIFFRACTION (2 Å) 主引用文献 Mutagenic conformation of 8-oxo-7,8-dihydro-2'-dGTP in the confines of a DNA polymerase active site. Nat.Struct.Mol.Biol., 17, 2010
8B9K	Cryo-EM structure of MLE in complex with ADP:AlF4 and SL7modUUC RNA 分子名称: ADENOSINE-5'-DIPHOSPHATE, Dosage compensation regulator, SL7modUUC, ... 著者 Jagtap, P.K.A, Hennig, J. 登録日 2022-10-06 公開日 2023-10-18 最終更新日 2024-05-01 実験手法 ELECTRON MICROSCOPY (4.04 Å) 主引用文献 Structural basis of RNA-induced autoregulation of the DExH-type RNA helicase maleless. Mol.Cell, 83, 2023
7R2V	Structure of nsp14 from SARS-CoV-2 in complex with SAH 分子名称: 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL, DI(HYDROXYETHYL)ETHER, Proofreading exoribonuclease nsp14, ... 著者 Czarna, A, Plewka, J, Kresik, L, Matsuda, A, Abdulkarim, K, Robinson, C, OByrne, S, Cunningham, F, Georgiou, I, Pachota, M, Popowicz, G.M, Wyatt, P.G, Dubin, G, Pyrc, K. 登録日 2022-02-06 公開日 2022-03-09 最終更新日 2024-01-31 実験手法 X-RAY DIFFRACTION (2.53 Å) 主引用文献 Refolding of lid subdomain of SARS-CoV-2 nsp14 upon nsp10 interaction releases exonuclease activity. Structure, 30, 2022
6VAR	61 nt human Hepatitis B virus epsilon pre-genomic RNA 分子名称: RNA (61-MER) 著者 LeBlanc, R.M, Kasprzak, W.K, Longhini, A.P, Abulwerdi, F, Ginocchio, S, Shields, B, Nyman, J, Svirydava, M, Del Vecchio, C, Ivanic, J, Schneekloth, J.S, Dayie, T.K, Shapiro, B.A, Le Grice, S.F.J. 登録日 2019-12-17 公開日 2020-12-30 最終更新日 2024-05-15 実験手法 SOLUTION NMR, SOLUTION SCATTERING 主引用文献 Structural insights of the conserved "priming loop" of hepatitis B virus pre-genomic RNA. J.Biomol.Struct.Dyn., 2021
3WFO	tRNA processing enzyme (apo form 1) 分子名称: Poly A polymerase, SULFATE ION 著者 Yamashita, S, Takeshita, D, Tomita, K. 登録日 2013-07-23 公開日 2014-01-01 最終更新日 2024-03-20 実験手法 X-RAY DIFFRACTION (3.4 Å) 主引用文献 Translocation and rotation of tRNA during template-independent RNA polymerization by tRNA nucleotidyltransferase Structure, 22, 2014
2B6G	RNA recognition by the Vts1 SAM domain 分子名称: 5'-R(*GP*GP*AP*GP*GP*CP*UP*CP*UP*GP*GP*CP*AP*GP*CP*UP*UP*UP*C)-3', Vts1p 著者 Donaldson, L.W, Johnson, P.E. 登録日 2005-10-01 公開日 2006-01-24 最終更新日 2024-05-22 実験手法 SOLUTION NMR 主引用文献 RNA recognition by the Vts1p SAM domain Nat.Struct.Mol.Biol., 13, 2006
2FLL	Ternary complex of human DNA polymerase iota with DNA and dTTP 分子名称: DNA polymerase iota, DNA primer strand, DNA template strand, ... 著者 Nair, D.T, Johnson, R.E, Prakash, L, Prakash, S, Aggarwal, A.K. 登録日 2006-01-06 公開日 2006-12-12 最終更新日 2023-08-30 実験手法 X-RAY DIFFRACTION (2.6 Å) 主引用文献 An incoming nucleotide imposes an anti to syn conformational change on the templating purine in the human DNA polymerase-iota active site. Structure, 14, 2006
3WFP	tRNA processing enzyme (apo form 2) 分子名称: Poly A polymerase, SULFATE ION 著者 Yamashita, S, Takeshita, D, Tomita, K. 登録日 2013-07-23 公開日 2014-01-01 最終更新日 2023-11-08 実験手法 X-RAY DIFFRACTION (4.005 Å) 主引用文献 Translocation and rotation of tRNA during template-independent RNA polymerization by tRNA nucleotidyltransferase Structure, 22, 2014
2L41	Nab3 RRM - UCUU complex 分子名称: RNA (5'-R(P*UP*CP*UP*U)-3'), RRM domain from Nuclear polyadenylated RNA-binding protein 3 著者 Stefl, R, Pergoli, R, Hobor, F, Kubicek, K, Zimmermann, M, Pasulka, J, Hofr, C. 登録日 2010-09-28 公開日 2010-11-17 最終更新日 2024-05-01 実験手法 SOLUTION NMR 主引用文献 Recognition of transcription termination signal by the nuclear polyadenylated RNA-binding (NAB) 3 protein J.Biol.Chem., 286, 2011
1R4G	Solution structure of the Sendai virus protein X C-subdomain 分子名称: RNA polymerase alpha subunit 著者 Blanchard, L, Tarbouriech, N, Blackledge, M, Timmins, P, Burmeister, W.P, Ruigrok, R.W, Marion, D. 登録日 2003-10-06 公開日 2004-03-09 最終更新日 2024-05-22 実験手法 SOLUTION NMR 主引用文献 Structure and dynamics of the nucleocapsid-binding domain of the Sendai virus phosphoprotein in solution Virology, 319, 2004
6NKZ	Ternary complex crystal structure of K289M variant of DNA polymerase Beta with "hot-spot sequence" with beta-gamma methylene dGTP 分子名称: 2'-DEOXY-5'-O-(HYDROXY{[HYDROXY(PHOSPHONOMETHYL)PHOSPHORYL]OXY}PHOSPHORYL)GUANOSINE, DNA (5'-D(*CP*CP*GP*AP*AP*CP*AP*AP*GP*CP*AP*TP*CP*AP*GP*C)-3'), DNA (5'-D(*GP*CP*TP*GP*AP*TP*GP*CP*TP*(2DT))-3'), ... 著者 Batra, V.K, Wilson, S.H. 登録日 2019-01-07 公開日 2020-01-08 最終更新日 2024-03-13 実験手法 X-RAY DIFFRACTION (2.01 Å) 主引用文献 Revealing an Internal Stabilization Deficiency in the DNA Polymerase beta K289M Cancer Variant through the Combined Use of Chemical Biology and X-ray Crystallography. Biochemistry, 59, 2020
6NKT	Ternary complex crystal structure of K289M variant of DNA polymerase Beta with beta-gamma difluoro analogue of dGTP 分子名称: 2'-DEOXY-5'-O-[({[DIFLUORO(PHOSPHONO)METHYL](HYDROXY)PHOSPHORYL}OXY)(HYDROXY)PHOSPHORYL]GUANOSINE, DNA (5'-D(*CP*CP*GP*AP*CP*CP*GP*CP*GP*CP*AP*TP*CP*AP*GP*C)-3'), DNA (5'-D(*GP*CP*TP*GP*AP*TP*GP*CP*GP*(DOC))-3'), ... 著者 Batra, V.K, Wilson, S.H. 登録日 2019-01-07 公開日 2020-01-08 最終更新日 2024-03-13 実験手法 X-RAY DIFFRACTION (2.6 Å) 主引用文献 Revealing an Internal Stabilization Deficiency in the DNA Polymerase beta K289M Cancer Variant through the Combined Use of Chemical Biology and X-ray Crystallography. Biochemistry, 59, 2020
6NKY	Ternary complex crystal structure of K289M variant of DNA polymerase Beta with "hot-spot sequence" with beta-gamma CHF analogue of dGTP 分子名称: 2'-DEOXY-5'-O-[(R)-{[(R)-[(R)-FLUORO(PHOSPHONO)METHYL](HYDROXY)PHOSPHORYL]OXY}(HYDROXY)PHOSPHORYL]GUANOSINE, CHLORIDE ION, DNA (5'-D(*CP*CP*GP*AP*AP*CP*AP*AP*GP*CP*AP*TP*CP*AP*GP*C)-3'), ... 著者 Batra, V.K, Wilson, S.H. 登録日 2019-01-07 公開日 2020-01-08 最終更新日 2024-03-13 実験手法 X-RAY DIFFRACTION (2.094 Å) 主引用文献 Revealing an Internal Stabilization Deficiency in the DNA Polymerase beta K289M Cancer Variant through the Combined Use of Chemical Biology and X-ray Crystallography. Biochemistry, 59, 2020
6NKV	Ternary complex crystal structure of DNA polymerase Beta with "hot-spot sequence" with beta-gamma CHF analogue of dGTP 分子名称: 2'-DEOXY-5'-O-[(R)-{[(R)-[(R)-FLUORO(PHOSPHONO)METHYL](HYDROXY)PHOSPHORYL]OXY}(HYDROXY)PHOSPHORYL]GUANOSINE, CHLORIDE ION, DNA (5'-D(*CP*CP*GP*AP*AP*CP*AP*AP*GP*CP*AP*TP*CP*AP*GP*C)-3'), ... 著者 Batra, V.K, Wilson, S.H. 登録日 2019-01-07 公開日 2020-01-08 最終更新日 2024-03-13 実験手法 X-RAY DIFFRACTION (1.85 Å) 主引用文献 Revealing an Internal Stabilization Deficiency in the DNA Polymerase beta K289M Cancer Variant through the Combined Use of Chemical Biology and X-ray Crystallography. Biochemistry, 59, 2020

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