PDB: 13413 件ウェブページステータス検索Chemie searchBIRD

---

4IBB	Ebola virus VP35 bound to small molecule 分子名称: Polymerase cofactor VP35, {4-[(5R)-3-hydroxy-2-oxo-4-(thiophen-2-ylcarbonyl)-5-(2,4,5-trimethylphenyl)-2,5-dihydro-1H-pyrrol-1-yl]phenyl}acetic acid 著者 Brown, C.S, Leung, D.W, Xu, W, Borek, D.M, Otwinowski, Z, Ramanan, P, Stubbs, A.J, Peterson, D.S, Binning, J.M, Amarasinghe, G.K, Center for Structural Genomics of Infectious Diseases (CSGID) 登録日 2012-12-08 公開日 2014-02-26 最終更新日 2024-02-28 実験手法 X-RAY DIFFRACTION (1.752 Å) 主引用文献 In Silico Derived Small Molecules Bind the Filovirus VP35 Protein and Inhibit Its Polymerase Cofactor Activity. J.Mol.Biol., 426, 2014
6N2S	Ternary complex crystal structure of DNA polymerase Beta with 5-carboxy-dC (5-caC) at the templating position 分子名称: 2'-deoxy-5'-O-[(R)-hydroxy{[(S)-hydroxy(phosphonooxy)phosphoryl]methyl}phosphoryl]guanosine, DNA (5'-D(*CP*CP*GP*AP*CP*(1CC)P*GP*CP*GP*CP*AP*TP*CP*AP*GP*C)-3'), DNA (5'-D(*GP*CP*TP*GP*AP*TP*GP*CP*GP*C)-3'), ... 著者 Batra, V.K, Wilson, S.H. 登録日 2018-11-14 公開日 2019-03-27 最終更新日 2023-10-11 実験手法 X-RAY DIFFRACTION (2.457 Å) 主引用文献 Molecular basis for the faithful replication of 5-methylcytosine and its oxidized forms by DNA polymerase beta. J.Biol.Chem., 294, 2019
6N2T	Ternary complex crystal structure of DNA polymerase Beta with 5-hydroxymethyl-dC (5-hmC) at the templating position 分子名称: 2'-deoxy-5'-O-[(R)-hydroxy{[(S)-hydroxy(phosphonooxy)phosphoryl]methyl}phosphoryl]guanosine, DNA (5'-D(*CP*CP*GP*AP*CP*(5HC)P*GP*CP*GP*CP*AP*TP*CP*AP*GP*C)-3'), DNA (5'-D(*GP*CP*TP*GP*AP*TP*GP*CP*GP*C)-3'), ... 著者 Batra, V.K, Wilson, S.H. 登録日 2018-11-14 公開日 2019-03-27 最終更新日 2023-10-11 実験手法 X-RAY DIFFRACTION (2.6 Å) 主引用文献 Molecular basis for the faithful replication of 5-methylcytosine and its oxidized forms by DNA polymerase beta. J.Biol.Chem., 294, 2019
4R65	Ternary complex crystal structure of R258A mutant of DNA polymerase Beta 分子名称: 2'-DEOXYURIDINE 5'-ALPHA,BETA-IMIDO-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, Wilson, S.H. 登録日 2014-08-22 公開日 2014-10-08 最終更新日 2024-02-28 実験手法 X-RAY DIFFRACTION (1.95 Å) 主引用文献 Substrate-induced DNA Polymerase beta Activation. J.Biol.Chem., 289, 2014
6D0M	Polymerase Eta post-insertion binary complex with cytarabine (AraC) 分子名称: DNA (5'-D(*CP*AP*TP*GP*AP*CP*AP*GP*TP*GP*CP*T)-3'), DNA polymerase eta, DNA/RNA (5'-D(*AP*GP*CP*AP*CP*TP*GP*T)-R(P*(CAR))-3'), ... 著者 Rechkoblit, O, Aggarwal, A.K. 登録日 2018-04-10 公開日 2018-09-05 最終更新日 2023-10-04 実験手法 X-RAY DIFFRACTION (1.832 Å) 主引用文献 Structural basis for polymerase eta-promoted resistance to the anticancer nucleoside analog cytarabine. Sci Rep, 8, 2018
8VFH	Ternary DNA Polymerase Beta bound to DNA containing primer terminal FapydG base-paired with a dC 分子名称: 2'-DEOXYCYTIDINE-5'-TRIPHOSPHATE, DNA (5'-D(*CP*CP*GP*AP*CP*GP*CP*CP*GP*CP*AP*TP*CP*AP*GP*C)-3'), DNA (5'-D(*GP*CP*TP*GP*AP*TP*GP*CP*GP*(FAP))-3'), ... 著者 Oden, P.N, Ryan, B.J, Freudenthal, B.D. 登録日 2023-12-21 公開日 2024-05-08 最終更新日 2024-06-05 実験手法 X-RAY DIFFRACTION (2.01 Å) 主引用文献 Biochemical and structural characterization of Fapy•dG replication by Human DNA polymerase beta. Nucleic Acids Res., 52, 2024
8VFA	Ternary DNA Polymerase Beta bound to DNA containing primer terminal dC base-paired with FapydG 分子名称: DNA (5'-D(*CP*CP*GP*AP*CP*CP*(FAP)P*CP*GP*CP*AP*TP*CP*AP*GP*C)-3'), DNA (5'-D(*GP*CP*TP*GP*AP*TP*GP*CP*GP*C)-3'), DNA (5'-D(P*GP*TP*CP*GP*G)-3'), ... 著者 Oden, P.N, Ryan, B.J, Freudenthal, B.D. 登録日 2023-12-21 公開日 2024-05-08 最終更新日 2024-06-05 実験手法 X-RAY DIFFRACTION (2.05 Å) 主引用文献 Biochemical and structural characterization of Fapy•dG replication by Human DNA polymerase beta. Nucleic Acids Res., 52, 2024
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
8VFI	Ternary DNA Polymerase Beta bound to DNA containing primer terminal FapydG base-paired with a dA 分子名称: 2'-DEOXYCYTIDINE-5'-TRIPHOSPHATE, CHLORIDE ION, DNA (5'-D(*CP*CP*GP*AP*CP*GP*AP*CP*GP*CP*AP*TP*CP*AP*GP*C)-3'), ... 著者 Oden, P.N, Ryan, B.J, Freudenthal, B.D. 登録日 2023-12-21 公開日 2024-05-15 最終更新日 2024-06-05 実験手法 X-RAY DIFFRACTION (1.77 Å) 主引用文献 Biochemical and structural characterization of Fapy•dG replication by Human DNA polymerase beta. Nucleic Acids Res., 52, 2024
8VFB	Ternary DNA Polymerase Beta bound to DNA containing primer terminal dA base-paired with FapydG 分子名称: DNA (5'-D(*CP*CP*GP*AP*CP*CP*(FAP)P*CP*GP*CP*AP*TP*CP*AP*GP*C)-3'), DNA (5'-D(*GP*CP*TP*GP*AP*TP*GP*CP*GP*A)-3'), DNA (5'-D(P*GP*TP*CP*GP*G)-3'), ... 著者 Oden, P.N, Ryan, B.J, Freudenthal, B.D. 登録日 2023-12-21 公開日 2024-05-08 最終更新日 2024-06-05 実験手法 X-RAY DIFFRACTION (2.64 Å) 主引用文献 Biochemical and structural characterization of Fapy•dG replication by Human DNA polymerase beta. Nucleic Acids Res., 52, 2024
8VFD	Ternary DNA Polymerase Beta bound to DNA containing template FapydG incoming TTP analog 分子名称: 1-{2-deoxy-5-O-[(R)-hydroxy{[(S)-hydroxy(phosphonooxy)phosphoryl]methyl}phosphoryl]-beta-D-threo-pentofuranosyl}-5-methylpyrimidine-2,4(1H,3H)-dione, DNA (5'-D(*CP*CP*GP*AP*CP*(FAP)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 Oden, P.N, Ryan, B.J, Freudenthal, B.D. 登録日 2023-12-21 公開日 2024-05-08 最終更新日 2024-06-05 実験手法 X-RAY DIFFRACTION (2.1 Å) 主引用文献 Biochemical and structural characterization of Fapy•dG replication by Human DNA polymerase beta. Nucleic Acids Res., 52, 2024
2AHQ	Solution Structure of the C-terminal RpoN Domain of Sigma-54 from Aquifex aeolicus 分子名称: RNA polymerase sigma factor RpoN 著者 Doucleff, M, Malak, L.T, Pelton, J.G, Wemmer, D.E. 登録日 2005-07-28 公開日 2005-10-11 最終更新日 2024-05-22 実験手法 SOLUTION NMR 主引用文献 The C-terminal RpoN domain of sigma54 forms an unpredicted helix-turn-helix motif similar to domains of sigma70. J.Biol.Chem., 280, 2005
1EUY	GLUTAMINYL-TRNA SYNTHETASE COMPLEXED WITH A TRNA MUTANT AND AN ACTIVE SITE INHIBITOR 分子名称: 5'-O-[N-(L-GLUTAMINYL)-SULFAMOYL]ADENOSINE, GLUTAMINYL TRNA, GLUTAMINYL-TRNA SYNTHETASE 著者 Sherlin, L.D, Bullock, T.L, Newberry, K.J, Lipman, R.S.A, Hou, Y.-M, Beijer, B, Sproat, B.S, Perona, J.J. 登録日 2000-04-19 公開日 2000-06-04 最終更新日 2024-02-07 実験手法 X-RAY DIFFRACTION (2.6 Å) 主引用文献 Influence of transfer RNA tertiary structure on aminoacylation efficiency by glutaminyl and cysteinyl-tRNA synthetases. J.Mol.Biol., 299, 2000
6PH6	Ternary complex crystal structure of DNA polymerase Beta with 2nt-gap with dCTP bound downstream 分子名称: 2'-DEOXYCYTIDINE-5'-TRIPHOSPHATE, DNA (5'-D(*CP*CP*GP*AP*CP*GP*GP*CP*GP*CP*AP*TP*CP*AP*GP*C)-3'), DNA (5'-D(*GP*CP*TP*GP*AP*TP*GP*CP*G)-3'), ... 著者 Batra, V.K, Wilson, S.H. 登録日 2019-06-25 公開日 2019-12-11 最終更新日 2023-10-11 実験手法 X-RAY DIFFRACTION (2.6 Å) 主引用文献 DNA polymerase beta nucleotide-stabilized template misalignment fidelity depends on local sequence context. J.Biol.Chem., 295, 2020
2JSE	NMR reveals absence of hydrogen bonding in adjacent UU and AG mismatches in an isolated internal loop from ribosomal RNA. 分子名称: RNA (5'-R(*GP*GP*AP*GP*UP*GP*GP*CP*CP*GP*AP*AP*AP*GP*GP*CP*AP*UP*CP*UP*CP*C)-3') 著者 Shankar, N. 登録日 2007-07-03 公開日 2007-11-20 最終更新日 2024-05-29 実験手法 SOLUTION NMR 主引用文献 NMR Reveals the Absence of Hydrogen Bonding in Adjacent UU and AG Mismatches in an Isolated Internal Loop from Ribosomal RNA Biochemistry, 46, 2007
2ALZ	Ternary Complex of hPoli with DNA and dCTP 分子名称: 2'-DEOXYCYTIDINE-5'-TRIPHOSPHATE, 5'-D(*AP*GP*GP*AP*CP*CP*(DOC))-3', 5'-D(*TP*GP*GP*GP*GP*TP*CP*CP*T)-3', ... 著者 Nair, D.T, Johnson, R.E, Prakash, L, Prakash, S, Aggarwal, A.K. 登録日 2005-08-08 公開日 2005-10-25 最終更新日 2023-08-23 実験手法 X-RAY DIFFRACTION (2.5 Å) 主引用文献 Human DNA Polymerase iota Incorporates dCTP Opposite Template G via a G.C+ Hoogsteen Base Pair. Structure, 13, 2005
4LG2	Crystal structure of Reston Ebola virus VP35 RNA binding domain bound to 12-bp dsRNA 分子名称: Polymerase cofactor, dsRNA 著者 Bale, S, Julien, J.-P, Bornholdt, Z.A, Krois, A.S, Wilson, I.A, Saphire, E.O. 登録日 2013-06-27 公開日 2013-07-10 最終更新日 2023-09-20 実験手法 X-RAY DIFFRACTION (2.7 Å) 主引用文献 Ebolavirus VP35 coats the backbone of double-stranded RNA for interferon antagonism. J.Virol., 87, 2013
4DOC	Ternary complex of dna polymerase beta with a dideoxy terminated primer and 2'-deoxyguanosine 5'-beta, gamma-monochlororomethylene triphosphate:binding of S-isomer 分子名称: 5'-O-[(R)-{[(S)-[(S)-chloro(phosphono)methyl](hydroxy)phosphoryl]oxy}(hydroxy)phosphoryl]-2'-deoxyguanosine, C C G A C C G C G C A T C A G C, CHLORIDE ION, ... 著者 Batra, V.K. 登録日 2012-02-09 公開日 2012-06-13 最終更新日 2023-09-13 実験手法 X-RAY DIFFRACTION (1.949 Å) 主引用文献 Beta,gamma-CHF- and beta,gamma-CHCl-dGTP Diastereomers: Synthesis, Discrete (31)P NMR Signatures, and Absolute Configurations of New Stereochemical Probes for DNA Polymerases J.Am.Chem.Soc., 134, 2012
1QU2	INSIGHTS INTO EDITING FROM AN ILE-TRNA SYNTHETASE STRUCTURE WITH TRNA(ILE) AND MUPIROCIN 分子名称: ISOLEUCYL-TRNA, ISOLEUCYL-TRNA SYNTHETASE, MAGNESIUM ION, ... 著者 Silvian, L.F, Wang, J, Steitz, T.A. 登録日 1999-07-06 公開日 1999-08-31 最終更新日 2023-08-23 実験手法 X-RAY DIFFRACTION (2.2 Å) 主引用文献 Insights into editing from an ile-tRNA synthetase structure with tRNAile and mupirocin. Science, 285, 1999
1QU3	INSIGHTS INTO EDITING FROM AN ILE-TRNA SYNTHETASE STRUCTURE WITH TRNA(ILE) AND MUPIROCIN 分子名称: ISOLEUCYL-TRNA, ISOLEUCYL-TRNA SYNTHETASE, MUPIROCIN, ... 著者 Silvian, L.F, Wang, J, Steitz, T.A. 登録日 1999-07-06 公開日 1999-08-31 最終更新日 2023-08-23 実験手法 X-RAY DIFFRACTION (2.9 Å) 主引用文献 Insights into editing from an ile-tRNA synthetase structure with tRNAile and mupirocin. Science, 285, 1999
4DO9	Ternary complex of dna polymerase beta with a dideoxy terminated primer and 2'-deoxyguanosine 5'-beta, gamma-monofluoromethylene triphosphate: stereoselective binding of r-isomer 分子名称: 2'-DEOXY-5'-O-[(R)-{[(R)-[(R)-FLUORO(PHOSPHONO)METHYL](HYDROXY)PHOSPHORYL]OXY}(HYDROXY)PHOSPHORYL]GUANOSINE, C C G A C C G C G C A T C A G C, CHLORIDE ION, ... 著者 Batra, V.K. 登録日 2012-02-09 公開日 2012-06-13 最終更新日 2023-09-13 実験手法 X-RAY DIFFRACTION (2.05 Å) 主引用文献 Beta,gamma-CHF- and beta,gamma-CHCl-dGTP Diastereomers: Synthesis, Discrete (31)P NMR Signatures, and Absolute Configurations of New Stereochemical Probes for DNA Polymerases J.Am.Chem.Soc., 134, 2012
6UES	Apo SAM-IV Riboswitch 分子名称: RNA (119-MER) 著者 Zhang, K, Li, S, Kappel, K, Pintilie, G, Su, Z, Mou, T, Schmid, M, Das, R, Chiu, W. 登録日 2019-09-23 公開日 2019-12-18 最終更新日 2024-03-20 実験手法 ELECTRON MICROSCOPY (3.7 Å) 主引用文献 Cryo-EM structure of a 40 kDa SAM-IV riboswitch RNA at 3.7 angstrom resolution. Nat Commun, 10, 2019
6UET	SAM-bound SAM-IV riboswitch 分子名称: RNA (119-MER), S-ADENOSYLMETHIONINE 著者 Zhang, K, Li, S, Kappel, K, Pintilie, G, Su, Z, Mou, T, Schmid, M, Das, R, Chiu, W. 登録日 2019-09-23 公開日 2019-12-18 最終更新日 2024-03-20 実験手法 ELECTRON MICROSCOPY (4.1 Å) 主引用文献 Cryo-EM structure of a 40 kDa SAM-IV riboswitch RNA at 3.7 angstrom resolution. Nat Commun, 10, 2019
2MQT	Solution NMR structure of the U5-primer binding site (U5-PBS) domain of murine leukemia virus RNA genome 分子名称: RNA (68-MER) 著者 D'Souza, V, Yildiz, Z. 登録日 2014-06-26 公開日 2014-09-10 最終更新日 2024-05-01 実験手法 SOLUTION NMR 主引用文献 A structure-based mechanism for tRNA and retroviral RNA remodelling during primer annealing. Nature, 515, 2014
3RRG	Ternary Structure of the large fragment of Taq DNA polymerase bound to an abasic site and a ddGTP 分子名称: (5'-D(*AP*AP*AP*(3DR)P*CP*GP*CP*GP*CP*CP*GP*TP*GP*GP*TP*C)-3'), (5'-D(*GP*AP*CP*CP*AP*CP*GP*GP*CP*GP*CP*(DDG))-3'), 2'-3'-DIDEOXYGUANOSINE-5'-TRIPHOSPHATE, ... 著者 Marx, A, Diederichs, K, Obeid, S. 登録日 2011-04-29 公開日 2012-02-15 最終更新日 2023-09-13 実験手法 X-RAY DIFFRACTION (2.3 Å) 主引用文献 Amino Acid templating mechanisms in selection of nucleotides opposite abasic sites by a family a DNA polymerase. J.Biol.Chem., 287, 2012

<101102103104105106107108109110111112113114115116>