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7EGQ	Co-transcriptional capping machineries in SARS-CoV-2 RTC: Coupling of N7-methyltransferase and 3'-5' exoribonuclease with polymerase reveals mechanisms for capping and proofreading Descriptor: Helicase, MAGNESIUM ION, Non-structural protein 10, ... Authors: Yan, L.M, Yang, Y.X, Li, M.Y, Zhang, Y, Zheng, L.T, Ge, J, Huang, Y.C, Liu, Z.Y, Wang, T, Gao, S, Zhang, R, Huang, Y.Y, Guddat, L.W, Gao, Y, Rao, Z.H, Lou, Z.Y. Deposit date: 2021-03-25 Release date: 2021-07-21 Last modified: 2024-06-05 Method: ELECTRON MICROSCOPY (3.35 Å) Cite: Coupling of N7-methyltransferase and 3'-5' exoribonuclease with SARS-CoV-2 polymerase reveals mechanisms for capping and proofreading. Cell, 184, 2021
5FJ7	Structure of the P2 polymerase inside in vitro assembled bacteriophage phi6 polymerase complex, with P1 included Descriptor: MAJOR INNER PROTEIN P1, MANGANESE (II) ION, RNA-DIRECTED RNA POLYMERASE Authors: Ilca, S, Kotecha, A, Sun, X, Poranen, M.P, Stuart, D.I, Huiskonen, J.T. Deposit date: 2015-10-06 Release date: 2015-11-04 Last modified: 2024-05-08 Method: ELECTRON MICROSCOPY (7.9 Å) Cite: Localized Reconstruction of Subunits from Electron Cryomicroscopy Images of Macromolecular Complexes. Nat.Commun., 6, 2015
8FYH	G4 RNA-mediated PRC2 dimer Descriptor: G4 RNA, Histone-binding protein RBBP4, Histone-lysine N-methyltransferase EZH2, ... Authors: Song, J, Kasinath, V. Deposit date: 2023-01-26 Release date: 2023-10-04 Last modified: 2024-10-30 Method: ELECTRON MICROSCOPY (3.4 Å) Cite: Structural basis for inactivation of PRC2 by G-quadruplex RNA. Science, 381, 2023
1Q79	CRYSTAL STRUCTURE OF MAMMALIAN POLY(A) POLYMERASE Descriptor: 3'-DEOXYADENOSINE-5'-TRIPHOSPHATE, GLYCEROL, MANGANESE (II) ION, ... Authors: Martin, G, Moglich, A, Keller, W, Doublie, S. Deposit date: 2003-08-16 Release date: 2004-09-07 Last modified: 2024-10-16 Method: X-RAY DIFFRACTION (2.15 Å) Cite: Biochemical and structural insights into substrate binding and catalytic mechanism of mammalian poly(A) polymerase. J.Mol.Biol., 341, 2004
2BPC	CRYSTAL STRUCTURE OF RAT DNA POLYMERASE BETA: EVIDENCE FOR A COMMON POLYMERASE MECHANISM Descriptor: DNA POLYMERASE BETA, MANGANESE (II) ION Authors: Sawaya, M.R, Pelletier, H, Kumar, A, Wilson, S.H, Kraut, J. Deposit date: 1994-07-08 Release date: 1994-08-31 Last modified: 2024-02-14 Method: X-RAY DIFFRACTION (2.8 Å) Cite: Crystal structure of rat DNA polymerase beta: evidence for a common polymerase mechanism. Science, 264, 1994
1N35	lambda3 elongation complex with four phosphodiester bond formed Descriptor: 3'-DEOXY-CYTIDINE-5'-TRIPHOSPHATE, 5'-R(*AP*UP*UP*AP*GP*CP*CP*CP*CP*C)-3', 5'-R(P*GP*GP*GP*GP*G)-3', ... Authors: Tao, Y, Farsetta, D.L, Nibert, M.L, Harrison, S.C. Deposit date: 2002-10-25 Release date: 2002-12-25 Last modified: 2024-04-03 Method: X-RAY DIFFRACTION (2.5 Å) Cite: RNA Synthesis in a Cage--Structural Studies of Reovirus Polymerase [lambda] 3 Cell(Cambridge,Mass.), 111, 2002
4AWM	Influenza strain pH1N1 2009 polymerase subunit PA endonuclease in complex with (-)-epigallocatechin gallate from green tea Descriptor: (2R,3R)-5,7-dihydroxy-2-(3,4,5-trihydroxyphenyl)-3,4-dihydro-2H-chromen-3-yl 3,4,5-trihydroxybenzoate, MANGANESE (II) ION, POLYMERASE PA Authors: Kowalinski, E, Zubieta, C, Wolkerstorfer, A, Szolar, O.H, Ruigrok, R.W, Cusack, S. Deposit date: 2012-06-04 Release date: 2012-08-22 Last modified: 2023-12-20 Method: X-RAY DIFFRACTION (2.6 Å) Cite: Structural Analysis of Specific Metal Chelating Inhibitor Binding to the Endonuclease Domain of Influenza Ph1N1 (2009) Polymerase. Plos Pathog., 8, 2012
4AWK	Influenza strain pH1N1 2009 polymerase subunit PA endonuclease in complex with diketo compound 1 Descriptor: (2Z)-4-[(3S)-1-(benzylsulfonyl)-3-(4-chlorobenzyl)piperidin-3-yl]-2-hydroxy-4-oxobut-2-enoic acid, MANGANESE (II) ION, POLYMERASE PA Authors: Kowalinski, E, Zubieta, C, Wolkerstorfer, A, Szolar, O.H, Ruigrok, R.W, Cusack, S. Deposit date: 2012-06-04 Release date: 2012-08-29 Last modified: 2023-12-20 Method: X-RAY DIFFRACTION (1.9 Å) Cite: Structural Analysis of Specific Metal Chelating Inhibitor Binding to the Endonuclease Domain of Influenza Ph1N1 (2009) Polymerase. Plos Pathog., 8, 2012
5ZYP	Structure of the Yeast Ctr9/Paf1 complex Descriptor: NICKEL (II) ION, RNA polymerase-associated protein CTR9,RNA polymerase II-associated protein 1 Authors: Xie, Y, Zheng, M, Zhou, H, Long, J. Deposit date: 2018-05-28 Release date: 2018-09-26 Last modified: 2024-11-13 Method: X-RAY DIFFRACTION (2.532 Å) Cite: Paf1 and Ctr9 subcomplex formation is essential for Paf1 complex assembly and functional regulation. Nat Commun, 9, 2018
7EH0	Thermus thermophilus RNA polymerase transcription initiation complex containing a template-strand purine at position TSS-2, UpA RNA primer and CMPcPP Descriptor: 5'-O-[(S)-hydroxy{[(S)-hydroxy(phosphonooxy)phosphoryl]methyl}phosphoryl]cytidine, DNA (27-MER), DNA (5'-D(*CP*C*TP*GP*CP*AP*TP*CP*CP*GP*TP*GP*AP*GP*TP*AP*AP*AP*G)-3'), ... Authors: Li, L, Zhang, Y. Deposit date: 2021-03-27 Release date: 2021-07-14 Last modified: 2023-11-29 Method: X-RAY DIFFRACTION (2.808 Å) Cite: Promoter-sequence determinants and structural basis of primer-dependent transcription initiation in Escherichia coli . Proc.Natl.Acad.Sci.USA, 118, 2021
6FHH	Crystal structure of bat influenza A/H17N10 polymerase with viral RNA promoter bound to a 22-mer modified Pol II CTD peptide with serine 5 thiophosphorylated. Descriptor: PHOSPHATE ION, Polymerase acidic protein, Polymerase basic protein 2, ... Authors: Lukarska, M, Cusack, S. Deposit date: 2018-01-14 Release date: 2019-01-30 Last modified: 2024-02-07 Method: X-RAY DIFFRACTION (2.7 Å) Cite: Towards New Anti-Influenza Therapeutics: Structure-Activity Relationships in the Interaction between Heterotrimeric Influenza Polymerase and Pol II C-terminal domain To Be Published
7EIZ	Coupling of N7-methyltransferase and 3'-5' exoribonuclease with SARS-CoV-2 polymerase reveals mechanisms for capping and proofreading Descriptor: Helicase, MAGNESIUM ION, Non-structural protein 10, ... Authors: Yan, L, Yang, Y.X, Li, M.Y, Zhang, Y, Zheng, L.T, Ge, J, Huang, Y.C, Liu, Z.Y, Wang, T, Gao, S, Zhang, R, Huang, Y.Y, Guddat, L.W, Gao, Y, Rao, Z.H, Lou, Z.Y. Deposit date: 2021-04-01 Release date: 2021-09-22 Last modified: 2024-11-06 Method: ELECTRON MICROSCOPY Cite: Coupling of N7-methyltransferase and 3'-5' exoribonuclease with SARS-CoV-2 polymerase reveals mechanisms for capping and proofreading Cell, 184, 2021
8KG8	Yeast replisome in state II Descriptor: ADENOSINE-5'-DIPHOSPHATE, Cell division control protein 45, DNA (61-mer), ... Authors: Dang, S, Zhai, Y, Feng, J, Yu, D, Xu, Z. Deposit date: 2023-08-17 Release date: 2023-12-06 Method: ELECTRON MICROSCOPY (4.23 Å) Cite: Synergism between CMG helicase and leading strand DNA polymerase at replication fork. Nat Commun, 14, 2023
4AWH	Influenza strain pH1N1 2009 polymerase subunit PA endonuclease in complex with rUMP Descriptor: MANGANESE (II) ION, POLYMERASE PA, URIDINE-5'-MONOPHOSPHATE Authors: Kowalinski, E, Zubieta, C, Wolkerstorfer, A, Szolar, O.H, Ruigrok, R.W, Cusack, S. Deposit date: 2012-06-03 Release date: 2012-08-22 Last modified: 2023-12-20 Method: X-RAY DIFFRACTION (2.05 Å) Cite: Structural Analysis of Specific Metal Chelating Inhibitor Binding to the Endonuclease Domain of Influenza Ph1N1 (2009) Polymerase. Plos Pathog., 8, 2012
4AVG	Influenza strain pH1N1 2009 polymerase subunit PA endonuclease in complex with diketo compound 2 Descriptor: (Z)-4-[4-[(4-chlorophenyl)methyl]-1-(cyclohexylmethyl)piperidin-4-yl]-2-oxidanyl-4-oxidanylidene-but-2-enoic acid, MANGANESE (II) ION, POLYMERASE PA Authors: Kowalinski, E, Zubieta, C, Wolkerstorfer, A, Szolar, O.H, Ruigrok, R.W, Cusack, S. Deposit date: 2012-05-25 Release date: 2012-08-22 Last modified: 2023-12-20 Method: X-RAY DIFFRACTION (2.2 Å) Cite: Structural Analysis of Specific Metal Chelating Inhibitor Binding to the Endonuclease Domain of Influenza Ph1N1 (2009) Polymerase. Plos Pathog., 8, 2012
4AWG	Influenza strain pH1N1 2009 polymerase subunit PA endonuclease in complex with diketo compound 3 Descriptor: (2Z)-4-[(3S)-1-benzyl-3-(4-chlorobenzyl)piperidin-3-yl]-2-hydroxy-4-oxobut-2-enoic acid, MANGANESE (II) ION, POLYMERASE PA, ... Authors: Kowalinski, E, Zubieta, C, Wolkerstorfer, A, Szolar, O.H, Ruigrok, R.W, Cusack, S. Deposit date: 2012-06-03 Release date: 2012-08-22 Last modified: 2023-12-20 Method: X-RAY DIFFRACTION (2.6 Å) Cite: Structural Analysis of Specific Metal Chelating Inhibitor Binding to the Endonuclease Domain of Influenza Ph1N1 (2009) Polymerase. Plos Pathog., 8, 2012
4AWF	Influenza strain pH1N1 2009 polymerase subunit PA endonuclease in complex with 2 4-dioxo-4-phenylbutanoic acid DPBA Descriptor: 2-4-DIOXO-4-PHENYLBUTANOIC ACID, MANGANESE (II) ION, POLYMERASE PA Authors: Kowalinski, E, Zubieta, C, Wolkerstorfer, A, Szolar, O.H, Ruigrok, R.W, Cusack, S. Deposit date: 2012-06-03 Release date: 2012-08-22 Last modified: 2023-12-20 Method: X-RAY DIFFRACTION (2.3 Å) Cite: Structural Analysis of Specific Metal Chelating Inhibitor Binding to the Endonuclease Domain of Influenza Ph1N1 (2009) Polymerase. Plos Pathog., 8, 2012
3Q23	X-ray crystal structure of the N4 mini-VRNAP and P2_7a promoter transcription initiation complex with GMPCPP and Manganese: sustrate complex II Descriptor: DIHYDROGENPHOSPHATE ION, DNA (5'-D(*TP*GP*CP*CP*TP*CP*CP*CP*AP*GP*GP*CP*AP*TP*CP*CP*AP*AP*AP*AP*GP*AP*AP*GP*CP*GP*GP*AP*GP*CP*TP*TP*CP*TP*TP*C)-3'), MANGANESE (II) ION, ... Authors: Gleghorn, M.L, Murakami, K.S. Deposit date: 2010-12-19 Release date: 2011-02-16 Last modified: 2024-02-21 Method: X-RAY DIFFRACTION (1.8 Å) Cite: X-ray crystal structures elucidate the nucleotidyl transfer reaction of transcript initiation using two nucleotides. Proc.Natl.Acad.Sci.USA, 108, 2011
4AVL	Influenza strain pH1N1 2009 polymerase subunit PA endonuclease in complex with dTMP Descriptor: MANGANESE (II) ION, POLYMERASE PA, THYMIDINE-5'-PHOSPHATE Authors: Kowalinski, E, Zubieta, C, Wolkerstorfer, A, Szolar, O.H.J, Ruigrok, R.W.H, Cusack, S. Deposit date: 2012-05-28 Release date: 2012-08-22 Last modified: 2023-12-20 Method: X-RAY DIFFRACTION (1.87 Å) Cite: Structural Analysis of Specific Metal Chelating Inhibitor Binding to the Endonuclease Domain of Influenza Ph1N1 (2009) Polymerase. Plos Pathog., 8, 2012
4AVQ	Influenza strain pH1N1 2009 polymerase subunit PA endonuclease Descriptor: MAGNESIUM ION, MANGANESE (II) ION, POLYMERASE PA Authors: Kowalinski, E, Zubieta, C, Wolkerstorfer, A, Szolar, O.H, Ruigrok, R.W, Cusack, S. Deposit date: 2012-05-29 Release date: 2012-08-22 Last modified: 2023-12-20 Method: X-RAY DIFFRACTION (2.1 Å) Cite: Structural Analysis of Specific Metal Chelating Inhibitor Binding to the Endonuclease Domain of Influenza Ph1N1 (2009) Polymerase. Plos Pathog., 8, 2012
7CKM	Structure of Machupo virus polymerase bound to Z matrix protein (monomeric complex) Descriptor: MANGANESE (II) ION, RING finger protein Z, RNA-directed RNA polymerase L, ... Authors: Xu, X, Peng, R, Peng, Q, Shi, Y. Deposit date: 2020-07-17 Release date: 2021-05-05 Last modified: 2024-11-13 Method: ELECTRON MICROSCOPY (3.37 Å) Cite: Cryo-EM structures of Lassa and Machupo virus polymerases complexed with cognate regulatory Z proteins identify targets for antivirals Nat Microbiol, 6, 2021
7CKL	Structure of Lassa virus polymerase bound to Z matrix protein Descriptor: MANGANESE (II) ION, RING finger protein Z, RNA-directed RNA polymerase L, ... Authors: Xu, X, Peng, R, Peng, Q, Shi, Y. Deposit date: 2020-07-17 Release date: 2021-05-05 Last modified: 2024-11-06 Method: ELECTRON MICROSCOPY (3.88 Å) Cite: Cryo-EM structures of Lassa and Machupo virus polymerases complexed with cognate regulatory Z proteins identify targets for antivirals Nat Microbiol, 6, 2021
3MF5	Hepatitis C virus polymerase NS5B (BK) with amide bioisostere thumb site inhibitor Descriptor: 3-[2-(trans-4-methylcyclohexyl)phenyl]-5-phenylthiophene-2-carboxylic acid, GLYCEROL, RNA-directed RNA polymerase Authors: Harris, S.F, Tavares, G, Ghate, M. Deposit date: 2010-04-01 Release date: 2010-07-28 Last modified: 2024-02-21 Method: X-RAY DIFFRACTION (2 Å) Cite: Cyclic amide bioisosterism: Strategic application to the design and synthesis of HCV NS5B polymerase inhibitors. Bioorg.Med.Chem.Lett., 20, 2010
4ZQQ	Apo form of influenza strain H1N1 polymerase acidic subunit N-terminal region Descriptor: MANGANESE (II) ION, Polymerase acidic protein,Polymerase acidic protein, SULFATE ION Authors: Fudo, S, Yamamoto, N, Nukaga, M, Odagiri, T, Tashiro, M, Neya, S, Hoshino, T. Deposit date: 2015-05-11 Release date: 2015-06-03 Last modified: 2023-11-08 Method: X-RAY DIFFRACTION (1.8 Å) Cite: Two Distinctive Binding Modes of Endonuclease Inhibitors to the N-Terminal Region of Influenza Virus Polymerase Acidic Subunit. Biochemistry, 55, 2016
7O3D	Cooperation between the intrinsically disordered and ordered regions of Spt6 regulates nucleosome and Pol II CTD binding, and nucleosome assembly Descriptor: Transcription elongation factor SPT6 Authors: Kasiliauskaite, A, Kubicek, K, Klumpler, T, Zanova, M, Zapletal, D, Novacek, J, Stefl, R. Deposit date: 2021-04-01 Release date: 2022-04-13 Last modified: 2024-11-13 Method: ELECTRON MICROSCOPY (3.71 Å) Cite: Cooperation between intrinsically disordered and ordered regions of Spt6 regulates nucleosome and Pol II CTD binding, and nucleosome assembly. Nucleic Acids Res., 50, 2022

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