PDB: 8254 resultsInfo pagesStatus searchChemie searchBIRD

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8OEU	Structure of the mammalian Pol II-SPT6 complex (composite structure, Structure 4) Descriptor: DNA-directed RNA polymerase II subunit E, DNA-directed RNA polymerase II subunit F, DNA-directed RNA polymerase II subunit RPB1, ... Authors: Chen, Y, Kokic, G, Dienemann, C, Dybkov, O, Urlaub, H, Cramer, P. Deposit date: 2023-03-13 Release date: 2023-10-18 Last modified: 2023-12-27 Method: ELECTRON MICROSCOPY (3.04 Å) Cite: Structure of the transcribing RNA polymerase II-Elongin complex. Nat.Struct.Mol.Biol., 30, 2023
7O4L	Yeast TFIIH in the expanded state within the pre-initiation complex Descriptor: ADENOSINE-5'-DIPHOSPHATE, BERYLLIUM TRIFLUORIDE ION, DNA-directed RNA polymerase II subunit RPB1, ... Authors: Schilbach, S, Aibara, S, Dienemann, C, Grabbe, F, Cramer, P. Deposit date: 2021-04-06 Release date: 2021-06-16 Last modified: 2021-08-04 Method: ELECTRON MICROSCOPY (3.4 Å) Cite: Structure of RNA polymerase II pre-initiation complex at 2.9 angstrom defines initial DNA opening. Cell, 184, 2021
7O4K	Yeast TFIIH in the contracted state within the pre-initiation complex Descriptor: ADENOSINE-5'-DIPHOSPHATE, BERYLLIUM TRIFLUORIDE ION, DNA-directed RNA polymerase II subunit RPB1, ... Authors: Schilbach, S, Aibara, S, Dienemann, C, Grabbe, F, Cramer, P. Deposit date: 2021-04-06 Release date: 2021-06-16 Last modified: 2021-08-04 Method: ELECTRON MICROSCOPY (3.6 Å) Cite: Structure of RNA polymerase II pre-initiation complex at 2.9 angstrom defines initial DNA opening. Cell, 184, 2021
3J1N	Cryo-EM map of a yeast minimal preinitiation complex interacting with the Mediator Head module Descriptor: DNA-directed RNA polymerase II subunit RPABC1, DNA-directed RNA polymerase II subunit RPABC2, DNA-directed RNA polymerase II subunit RPABC3, ... Authors: Asturias, F.J, Imasaki, T. Deposit date: 2012-03-29 Release date: 2013-03-06 Last modified: 2024-02-21 Method: ELECTRON MICROSCOPY (16 Å) Cite: Interaction of the mediator head module with RNA polymerase II. Structure, 20, 2012
3H3V	Yeast RNAP II containing poly(A)-signal sequence in the active site Descriptor: 5'-D(*AP*GP*CP*TP*CP*AP*AP*GP*TP*AP*GP*CP*TP*GP*CP*TP*TP*TP*AP*TP*TP*GP*CP*AP*TP*T)-3', 5'-D(*CP*AP*GP*CP*TP*AP*CP*TP*TP*GP*AP*GP*CP*T)-3', 5'-R(*UP*GP*CP*AP*UP*UP*UP*CP*GP*CP*AP*AP*UP*AP*AP*A)-3', ... Authors: Dengl, S, Cramer, P. Deposit date: 2009-04-17 Release date: 2009-06-16 Last modified: 2023-09-06 Method: X-RAY DIFFRACTION (4 Å) Cite: Torpedo Nuclease Rat1 Is Insufficient to Terminate RNA Polymerase II in Vitro J.Biol.Chem., 284, 2009
6XI8	Yeast TFIIK (Kin28/Ccl1/Tfb3) Complex Descriptor: ADENOSINE-5'-DIPHOSPHATE, ALUMINUM FLUORIDE, Cyclin CCL1, ... Authors: van Eeuwen, T, Murakami, K, Li, T, Tsai, K.L. Deposit date: 2020-06-19 Release date: 2021-04-28 Method: ELECTRON MICROSCOPY (3.64 Å) Cite: Structure of TFIIK for phosphorylation of CTD of RNA polymerase II. Sci Adv, 7, 2021
7ML3	General transcription factor TFIIH (weak binding) Descriptor: BJ4_G0050160.mRNA.1.CDS.1, General transcription and DNA repair factor IIH, General transcription and DNA repair factor IIH helicase subunit XPB, ... Authors: Yang, C, Fujiwara, R, Kim, H.J, Gorbea Colon, J.J, Steimle, S, Garcia, B.A, Murakami, K. Deposit date: 2021-04-27 Release date: 2022-02-02 Last modified: 2022-02-16 Method: ELECTRON MICROSCOPY (7.6 Å) Cite: Structural visualization of de novo transcription initiation by Saccharomyces cerevisiae RNA polymerase II. Mol.Cell, 82, 2022
1A1D	YEAST RNA POLYMERASE SUBUNIT RPB8, NMR, MINIMIZED AVERAGE STRUCTURE, ALPHA CARBONS ONLY Descriptor: RNA POLYMERASE Authors: Krapp, S, Kelly, G, Reischl, J, Weinzierl, R, Matthews, S. Deposit date: 1997-12-10 Release date: 1999-03-02 Last modified: 2024-04-10 Method: SOLUTION NMR Cite: Eukaryotic RNA polymerase subunit RPB8 is a new relative of the OB family. Nat.Struct.Biol., 5, 1998
7KUE	CryoEM structure of Yeast TFIIK (Kin28/Ccl1/Tfb3) Complex Descriptor: ADENOSINE-5'-DIPHOSPHATE, ALUMINUM FLUORIDE, Cyclin CCL1, ... Authors: van Eeuwen, T, Murakami, K, Li, T, Tsai, K.L. Deposit date: 2020-11-24 Release date: 2021-04-28 Method: ELECTRON MICROSCOPY (3.5 Å) Cite: Structure of TFIIK for phosphorylation of CTD of RNA polymerase II. Sci Adv, 7, 2021
3J1O	Cryo-EM map of a yeast minimal preinitiation complex interacting with the Mediator Head module Descriptor: Mediator of RNA polymerase II transcription subunit 11, Mediator of RNA polymerase II transcription subunit 17, Mediator of RNA polymerase II transcription subunit 18, ... Authors: Asturias, F.J, Imasaki, T. Deposit date: 2012-03-29 Release date: 2013-03-06 Last modified: 2024-02-21 Method: ELECTRON MICROSCOPY (16 Å) Cite: Interaction of the mediator head module with RNA polymerase II. Structure, 20, 2012
7Z43	Influenza B polymerase with Pol II pSer5 CTD peptide mimic bound in site 1B and 2B Descriptor: PHOSPHATE ION, Polymerase acidic protein, Polymerase basic protein 2, ... Authors: Cusack, S, Drncova, P. Deposit date: 2022-03-03 Release date: 2022-05-11 Last modified: 2024-01-31 Method: X-RAY DIFFRACTION (3.123 Å) Cite: Type B and type A influenza polymerases have evolved distinct binding interfaces to recruit the RNA polymerase II CTD. Plos Pathog., 18, 2022
7Z4O	Influenza A/H7N9 polymerase core dimer with Pol II pSer5 CTD peptide mimic bound in site 2A Descriptor: MAGNESIUM ION, Polymerase acidic protein, Polymerase basic protein 2, ... Authors: Cusack, S, Pflug, A. Deposit date: 2022-03-04 Release date: 2022-05-11 Last modified: 2024-01-31 Method: X-RAY DIFFRACTION (3.412 Å) Cite: Type B and type A influenza polymerases have evolved distinct binding interfaces to recruit the RNA polymerase II CTD. Plos Pathog., 18, 2022
8PNP	Influenza A/H7N9 polymerase in pre-initiation state with continuous Pol II pS5 CTD peptide mimic bound in site 1A/2A Descriptor: 51-mer vRNA loop (v51_mut_S), Polymerase acidic protein, Polymerase basic protein 2, ... Authors: Arragain, B, Cusack, S. Deposit date: 2023-06-30 Release date: 2024-02-21 Method: ELECTRON MICROSCOPY (2.49 Å) Cite: The host RNA polymerase II C-terminal domain is the anchor for replication of the influenza virus genome. Nat Commun, 15, 2024
8PNQ	Influenza A/H7N9 polymerase in elongation state with continuous Pol II pS5 CTD peptide mimic bound in site 1A/2A Descriptor: 5'-O-[(S)-hydroxy{[(S)-hydroxy(phosphonooxy)phosphoryl]amino}phosphoryl]uridine, 51-mer vRNA loop (v51_mut_S), MAGNESIUM ION, ... Authors: Arragain, B, Cusack, S. Deposit date: 2023-06-30 Release date: 2024-02-21 Method: ELECTRON MICROSCOPY (2.88 Å) Cite: The host RNA polymerase II C-terminal domain is the anchor for replication of the influenza virus genome. Nat Commun, 15, 2024
8PM0	Influenza A/H7N9 polymerase in replicase-like conformation in pre-initiation state with Pol II pS5 CTD peptide mimic bound in site 1A/2A Descriptor: 51-mer vRNA loop (v51_mut_S), MAGNESIUM ION, Polymerase acidic protein, ... Authors: Arragain, B, Cusack, S. Deposit date: 2023-06-27 Release date: 2024-02-21 Method: ELECTRON MICROSCOPY (2.9 Å) Cite: The host RNA polymerase II C-terminal domain is the anchor for replication of the influenza virus genome. Nat Commun, 15, 2024
8R3K	Influenza A/H7N9 polymerase in self-stalled pre-termination state, with Pol II pS5 CTD peptide mimic bound in site 1A/2A. Descriptor: 51-mer vRNA loop (v51_mut_S), MAGNESIUM ION, PYROPHOSPHATE 2-, ... Authors: Arragain, B, Cusack, S. Deposit date: 2023-11-09 Release date: 2024-02-21 Method: ELECTRON MICROSCOPY (3.43 Å) Cite: The host RNA polymerase II C-terminal domain is the anchor for replication of the influenza virus genome. Nat Commun, 15, 2024
8R3L	Influenza A/H7N9 polymerase in pre-initiation state, intermediate conformation (I) with PB2-C(I), ENDO(T), and Pol II pS5 CTD peptide mimic bound in site 1A/2A Descriptor: 3' vRNA end (51-mer vRNA loop), Polymerase acidic protein, Polymerase basic protein 2, ... Authors: Arragain, B, Cusack, S. Deposit date: 2023-11-09 Release date: 2024-02-21 Method: ELECTRON MICROSCOPY (3.25 Å) Cite: The host RNA polymerase II C-terminal domain is the anchor for replication of the influenza virus genome. Nat Commun, 15, 2024
8POH	Influenza A/H7N9 polymerase symmetric dimer bound to the promoter (PA K289A/C489R) Descriptor: 51-mer vRNA loop (v51_mut_S), MAGNESIUM ION, Polymerase acidic protein, ... Authors: Arragain, B, Cusack, S. Deposit date: 2023-07-04 Release date: 2024-02-21 Method: ELECTRON MICROSCOPY (3.3 Å) Cite: The host RNA polymerase II C-terminal domain is the anchor for replication of the influenza virus genome. Nat Commun, 15, 2024
8RBZ	Structure of Integrator-PP2A-SOSS-CTD post-termination complex Descriptor: DNA-directed RNA polymerase subunit, DSS1, Integrator complex subunit 1, ... Authors: Fianu, I, Ochmann, M, Walshe, J.L, Cramer, P. Deposit date: 2023-12-05 Release date: 2024-02-07 Last modified: 2024-05-15 Method: ELECTRON MICROSCOPY (3.7 Å) Cite: Structural basis of Integrator-dependent RNA polymerase II termination. Nature, 629, 2024
4GWP	Structure of the Mediator Head Module from S. cerevisiae Descriptor: Mediator of RNA polymerase II transcription subunit 11, Mediator of RNA polymerase II transcription subunit 17, Mediator of RNA polymerase II transcription subunit 18, ... Authors: Robinson, P.J.J, Bushnell, D.A, Trnka, M.J, Burlingame, A.L, Kornberg, R.D. Deposit date: 2012-09-03 Release date: 2012-10-31 Last modified: 2024-02-28 Method: X-RAY DIFFRACTION (4.2 Å) Cite: Structure of the Mediator Head module bound to the carboxy-terminal domain of RNA polymerase II. Proc.Natl.Acad.Sci.USA, 109, 2012
4YH1	Structure of Human Scp1 bound to cis-proline peptidomimetic CTD phospho-Ser5 peptide Descriptor: A small phosphatase 1, Carboxy-terminal domain RNA polymerase II polypeptide A small phosphatase 1, MAGNESIUM ION Authors: Mayfield, J.E, Zhang, Y. Deposit date: 2015-02-26 Release date: 2015-09-16 Last modified: 2015-10-28 Method: X-RAY DIFFRACTION (2.2 Å) Cite: Chemical Tools To Decipher Regulation of Phosphatases by Proline Isomerization on Eukaryotic RNA Polymerase II. Acs Chem.Biol., 10, 2015
4YGY	Crystal Structure of Human Scp1 bound to trans-proline peptidomimetic CTD phospho-Ser5 peptide Descriptor: Carboxy-terminal domain RNA polymerase II polypeptide A small phosphatase 1, MAGNESIUM ION, peptidomimetic CTD phospho-Ser5 peptide Authors: Mayfield, J.E, Zhang, Y. Deposit date: 2015-02-26 Release date: 2015-09-16 Last modified: 2015-10-28 Method: X-RAY DIFFRACTION (2.36 Å) Cite: Chemical Tools To Decipher Regulation of Phosphatases by Proline Isomerization on Eukaryotic RNA Polymerase II. Acs Chem.Biol., 10, 2015
6DT8	Bacteriophage N4 RNA polymerase II elongation complex 1 Descriptor: DNA (5'-D(P*AP*CP*CP*CP*AP*CP*CP*AP*AP*AP*AP*A)-3'), RNA (5'-R(P*UP*GP*GP*UP*GP*G)-3'), RNAP1, ... Authors: Molodtsov, V, Murakami, K.S. Deposit date: 2018-06-15 Release date: 2018-07-11 Last modified: 2024-03-13 Method: X-RAY DIFFRACTION (3.2 Å) Cite: Minimalism and functionality: Structural lessons from the heterodimeric N4 bacteriophage RNA polymerase II. J. Biol. Chem., 293, 2018
6DTA	Bacteriophage N4 RNA polymerase II elongation complex 2 Descriptor: DNA (5'-D(P*CP*CP*CP*AP*CP*CP*AP*AP*AP*AP*A)-3'), GUANOSINE-5'-TRIPHOSPHATE, MAGNESIUM ION, ... Authors: Molodtsov, V, Murakami, K.S. Deposit date: 2018-06-15 Release date: 2018-07-11 Last modified: 2024-03-13 Method: X-RAY DIFFRACTION (2.694 Å) Cite: Minimalism and functionality: Structural lessons from the heterodimeric N4 bacteriophage RNA polymerase II. J. Biol. Chem., 293, 2018
4JXT	CID of human RPRD1A in complex with a phosphorylated peptide from RPB1-CTD Descriptor: DNA-directed RNA polymerase II subunit RPB1, Regulation of nuclear pre-mRNA domain-containing protein 1A, UNKNOWN ATOM OR ION Authors: Ni, Z, Xu, C, Tempel, W, El Bakkouri, M, Loppnau, P, Guo, X, Bountra, C, Weigelt, J, Arrowsmith, C.H, Edwards, A.M, Min, J, Greenblatt, J.F, Structural Genomics Consortium (SGC) Deposit date: 2013-03-28 Release date: 2013-11-13 Last modified: 2023-09-20 Method: X-RAY DIFFRACTION (1.9 Å) Cite: RPRD1A and RPRD1B are human RNA polymerase II C-terminal domain scaffolds for Ser5 dephosphorylation. Nat.Struct.Mol.Biol., 21, 2014

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