PDB: 10243 resultsInfo pagesStatus searchChemie searchBIRD

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9FSQ	RNA Polymerase III Class III Melting Pre-Initiation Complex (MC) Descriptor: DNA-directed RNA polymerase III subunit RPC1, DNA-directed RNA polymerase III subunit RPC10, DNA-directed RNA polymerase III subunit RPC2, ... Authors: Shah, S.Z, Ramsay, E.P, Cecatiello, V, Perry, T.N, Vannini, A. Deposit date: 2024-06-21 Release date: 2025-01-15 Method: ELECTRON MICROSCOPY (3.51 Å) Cite: Structural insights into distinct mechanisms of RNA polymerase II and III recruitment to snRNA promoters. Nat Commun, 16, 2025
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: 2024-11-13 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
6BLP	Pol II elongation complex with an abasic lesion at i+1 position, soaking AMPCPP Descriptor: DIPHOSPHOMETHYLPHOSPHONIC ACID ADENOSYL ESTER, DNA (5'-D(P*AP*(3DR)P*CP*TP*CP*TP*CP*GP*AP*TP*G)-3'), DNA-directed RNA polymerase II subunit RPB1, ... Authors: Wang, W, Wang, D. Deposit date: 2017-11-11 Release date: 2018-02-28 Last modified: 2024-03-13 Method: X-RAY DIFFRACTION (3.203 Å) Cite: Structural basis of transcriptional stalling and bypass of abasic DNA lesion by RNA polymerase II. Proc. Natl. Acad. Sci. U.S.A., 115, 2018
6BLO	Pol II elongation complex with an abasic lesion at i+1 position Descriptor: DNA (5'-D(P*AP*(3DR)P*CP*TP*CP*TP*CP*GP*AP*TP*G)-3'), DNA-directed RNA polymerase II subunit RPB1, DNA-directed RNA polymerase II subunit RPB11, ... Authors: Wang, W, Wang, D. Deposit date: 2017-11-10 Release date: 2018-02-28 Last modified: 2024-03-13 Method: X-RAY DIFFRACTION (3.401 Å) Cite: Structural basis of transcriptional stalling and bypass of abasic DNA lesion by RNA polymerase II. Proc. Natl. Acad. Sci. U.S.A., 115, 2018
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: 2024-10-09 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
6BM2	Pol II elongation complex with an abasic lesion at i-1 position Descriptor: DNA (5'-D(P*CP*AP*(3DR)P*CP*TP*CP*TP*TP*GP*AP*TP*G)-3'), DNA-directed RNA polymerase II subunit RPB1, DNA-directed RNA polymerase II subunit RPB11, ... Authors: Wang, W, Wang, D. Deposit date: 2017-11-13 Release date: 2018-02-28 Last modified: 2024-03-13 Method: X-RAY DIFFRACTION (3.403 Å) Cite: Structural basis of transcriptional stalling and bypass of abasic DNA lesion by RNA polymerase II. Proc. Natl. Acad. Sci. U.S.A., 115, 2018
6BQF	Pol II elongation complex with 'dT-AP' at i+1, i-1 position Descriptor: DNA (5'-D(P*CP*TP*(3DR)P*CP*TP*CP*TP*TP*GP*AP*TP*G)-3'), DNA-directed RNA polymerase II subunit RPB1, DNA-directed RNA polymerase II subunit RPB11, ... Authors: Wang, W, Wang, D. Deposit date: 2017-11-27 Release date: 2018-02-28 Last modified: 2024-03-13 Method: X-RAY DIFFRACTION (3.35 Å) Cite: Structural basis of transcriptional stalling and bypass of abasic DNA lesion by RNA polymerase II. Proc. Natl. Acad. Sci. U.S.A., 115, 2018
6BM4	Pol II elongation complex with an abasic lesion at i-1 position,soaking UMPNPP Descriptor: 5'-O-[(S)-hydroxy{[(S)-hydroxy(phosphonooxy)phosphoryl]amino}phosphoryl]uridine, DNA (5'-D(P*CP*AP*(3DR)P*CP*TP*CP*TP*TP*GP*AP*TP*G)-3'), DNA-directed RNA polymerase II subunit RPB1, ... Authors: Wang, W, Wang, D. Deposit date: 2017-11-13 Release date: 2018-02-28 Last modified: 2024-03-13 Method: X-RAY DIFFRACTION (2.951 Å) Cite: Structural basis of transcriptional stalling and bypass of abasic DNA lesion by RNA polymerase II. Proc. Natl. Acad. Sci. U.S.A., 115, 2018
9G1V	Yeast RNA polymerase I elongation complex stalled by an apurinic site Descriptor: DNA-directed RNA polymerase I subunit RPA12, DNA-directed RNA polymerase I subunit RPA135, DNA-directed RNA polymerase I subunit RPA14, ... Authors: Santos-Aledo, A, Plaza-Pegueroles, A, Ruiz, F.M, Fernandez-Tornero, C. Deposit date: 2024-07-10 Release date: 2025-06-18 Method: ELECTRON MICROSCOPY (2.7 Å) Cite: Cryo-EM uncovers a sequential mechanism for RNA polymerase I pausing and stalling at abasic DNA lesions. Nat Commun, 16, 2025
9G26	Yeast RNA polymerase I elongation complex stalled by an apurinic site, closed state Descriptor: DNA-directed RNA polymerase I subunit RPA12, DNA-directed RNA polymerase I subunit RPA135, DNA-directed RNA polymerase I subunit RPA14, ... Authors: Santos-Aledo, A, Plaza-Pegueroles, A, Ruiz, F.M, Fernandez-Tornero, C. Deposit date: 2024-07-10 Release date: 2025-06-18 Method: ELECTRON MICROSCOPY (3.4 Å) Cite: Cryo-EM uncovers a sequential mechanism for RNA polymerase I pausing and stalling at abasic DNA lesions. Nat Commun, 16, 2025
9G27	Yeast RNA polymerase I elongation complex stalled by an apurinic site, pre-translocation state Descriptor: DNA-directed RNA polymerase I subunit RPA12, DNA-directed RNA polymerase I subunit RPA135, DNA-directed RNA polymerase I subunit RPA14, ... Authors: Santos-Aledo, A, Plaza-Pegueroles, A, Ruiz, F.M, Fernandez-Tornero, C. Deposit date: 2024-07-10 Release date: 2025-06-18 Method: ELECTRON MICROSCOPY (2.8 Å) Cite: Cryo-EM uncovers a sequential mechanism for RNA polymerase I pausing and stalling at abasic DNA lesions. Nat Commun, 16, 2025
9G23	Yeast RNA polymerase I elongation complex stalled by an apurinic site bound to nucleotide analog AMPCPP at A-site Descriptor: DIPHOSPHOMETHYLPHOSPHONIC ACID ADENOSYL ESTER, DNA-directed RNA polymerase I subunit RPA12, DNA-directed RNA polymerase I subunit RPA135, ... Authors: Santos-Aledo, A, Plaza-Pegueroles, A, Ruiz, F.M, Fernandez-Tornero, C. Deposit date: 2024-07-10 Release date: 2025-06-18 Method: ELECTRON MICROSCOPY (3.4 Å) Cite: Cryo-EM uncovers a sequential mechanism for RNA polymerase I pausing and stalling at abasic DNA lesions. Nat Commun, 16, 2025
9G2B	Yeast RNA polymerase I elongation complex stalled by an apurinic site, 12-subunit Descriptor: DNA-directed RNA polymerase I subunit RPA12, DNA-directed RNA polymerase I subunit RPA135, DNA-directed RNA polymerase I subunit RPA14, ... Authors: Santos-Aledo, A, Plaza-Pegueroles, A, Ruiz, F.M, Fernandez-Tornero, C. Deposit date: 2024-07-10 Release date: 2025-06-18 Method: ELECTRON MICROSCOPY (3.2 Å) Cite: Cryo-EM uncovers a sequential mechanism for RNA polymerase I pausing and stalling at abasic DNA lesions. Nat Commun, 16, 2025
9G24	Yeast RNA polymerase I elongation complex stalled by an apurinic site bound to nucleotide analog AMPCPP at E-site Descriptor: DIPHOSPHOMETHYLPHOSPHONIC ACID ADENOSYL ESTER, DNA-directed RNA polymerase I subunit RPA12, DNA-directed RNA polymerase I subunit RPA135, ... Authors: Santos-Aledo, A, Plaza-Pegueroles, A, Ruiz, F.M, Fernandez-Tornero, C. Deposit date: 2024-07-10 Release date: 2025-06-18 Method: ELECTRON MICROSCOPY (3.5 Å) Cite: Cryo-EM uncovers a sequential mechanism for RNA polymerase I pausing and stalling at abasic DNA lesions. Nat Commun, 16, 2025
9G29	Yeast RNA polymerase I elongation complex stalled by an apurinic site with the C-terminal of A12 in the funnel Descriptor: DNA-directed RNA polymerase I subunit RPA12, DNA-directed RNA polymerase I subunit RPA135, DNA-directed RNA polymerase I subunit RPA14, ... Authors: Santos-Aledo, A, Plaza-Pegueroles, A, Ruiz, F.M, Fernandez-Tornero, C. Deposit date: 2024-07-10 Release date: 2025-06-18 Method: ELECTRON MICROSCOPY (3.3 Å) Cite: Cryo-EM uncovers a sequential mechanism for RNA polymerase I pausing and stalling at abasic DNA lesions. Nat Commun, 16, 2025
9G2C	Yeast RNA polymerase I elongation complex stalled by an apurinic site, open state Descriptor: DNA-directed RNA polymerase I subunit RPA12, DNA-directed RNA polymerase I subunit RPA135, DNA-directed RNA polymerase I subunit RPA190, ... Authors: Santos-Aledo, A, Plaza-Pegueroles, A, Ruiz, F.M, Fernandez-Tornero, C. Deposit date: 2024-07-10 Release date: 2025-06-18 Method: ELECTRON MICROSCOPY (3.5 Å) Cite: Cryo-EM uncovers a sequential mechanism for RNA polymerase I pausing and stalling at abasic DNA lesions. Nat Commun, 16, 2025
9G1X	Yeast RNA polymerase I elongation complex stalled by an apurinic site, 11-subunit Descriptor: DNA-directed RNA polymerase I subunit RPA135, DNA-directed RNA polymerase I subunit RPA14, DNA-directed RNA polymerase I subunit RPA190, ... Authors: Santos-Aledo, A, Plaza-Pegueroles, A, Ruiz, F.M, Fernandez-Tornero, C. Deposit date: 2024-07-10 Release date: 2025-06-18 Method: ELECTRON MICROSCOPY (3.5 Å) Cite: Cryo-EM uncovers a sequential mechanism for RNA polymerase I pausing and stalling at abasic DNA lesions. Nat Commun, 16, 2025
1P16	Structure of an mRNA capping enzyme bound to the phosphorylated carboxyl-terminal domain of RNA polymerase II Descriptor: GUANOSINE-5'-MONOPHOSPHATE, GUANOSINE-5'-TRIPHOSPHATE, PHOSPHATE ION, ... Authors: Fabrega, C, Shen, V, Shuman, S, Lima, C.D. Deposit date: 2003-04-11 Release date: 2003-07-15 Last modified: 2024-10-16 Method: X-RAY DIFFRACTION (2.7 Å) Cite: Structure of an mRNA capping enzyme bound to the phosphorylated carboxy-terminal domain of RNA polymerase II. Mol.Cell, 11, 2003
5HFZ	Mmi1 YTH domain Descriptor: YTH domain-containing protein mmi1 Authors: Chatterjee, D, Goldgur, Y, Shuman, S. Deposit date: 2016-01-07 Release date: 2016-02-10 Last modified: 2024-03-06 Method: X-RAY DIFFRACTION (1.96 Å) Cite: Transcription of lncRNA prt, clustered prt RNA sites for Mmi1 binding, and RNA polymerase II CTD phospho-sites govern the repression of pho1 gene expression under phosphate-replete conditions in fission yeast. Rna, 22, 2016
5H8A	Mmi1 YTH domain Descriptor: YTH domain-containing protein mmi1 Authors: Chatterjee, D, Goldgur, Y, Shuman, S. Deposit date: 2015-12-23 Release date: 2016-01-13 Last modified: 2024-03-06 Method: X-RAY DIFFRACTION (1.751 Å) Cite: Transcription of lncRNA prt, clustered prt RNA sites for Mmi1 binding, and RNA polymerase II CTD phospho-sites govern the repression of pho1 gene expression under phosphate-replete conditions in fission yeast. Rna, 22, 2016
9FSO	Human RNA Polymerase III Class III Open Pre-initiation Complex 1 (OC1) Descriptor: DNA-directed RNA polymerase III subunit RPC1, DNA-directed RNA polymerase III subunit RPC10, DNA-directed RNA polymerase III subunit RPC2, ... Authors: Shah, S.Z, Ramsay, E.P, Cecatiello, V, Perry, T.N, Vannini, A. Deposit date: 2024-06-21 Release date: 2025-01-15 Method: ELECTRON MICROSCOPY (3.28 Å) Cite: Structural insights into distinct mechanisms of RNA polymerase II and III recruitment to snRNA promoters. Nat Commun, 16, 2025
3QT1	RNA polymerase II variant containing A Chimeric RPB9-C11 subunit Descriptor: DNA-directed RNA polymerase II subunit RPB1, DNA-directed RNA polymerase II subunit RPB11, DNA-directed RNA polymerase II subunit RPB2, ... Authors: Ruan, W, Lehmann, E, Thomm, M, Kostrewa, D, Cramer, P. Deposit date: 2011-02-22 Release date: 2011-03-23 Last modified: 2024-11-20 Method: X-RAY DIFFRACTION (4.3 Å) Cite: Evolution of two modes of intrinsic RNA polymerase transcript cleavage. J.Biol.Chem., 286, 2011
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: 2024-12-25 Method: ELECTRON MICROSCOPY (7.6 Å) Cite: Structural visualization of de novo transcription initiation by Saccharomyces cerevisiae RNA polymerase II. Mol.Cell, 82, 2022
3CLJ	Structure of the RNA polymerase II CTD-interacting domain of Nrd1 Descriptor: GLYCEROL, Protein NRD1, SULFATE ION Authors: Vasiljeva, L, Kim, M, Mutschler, H, Buratowski, S, Meinhart, A. Deposit date: 2008-03-19 Release date: 2008-07-29 Last modified: 2024-02-21 Method: X-RAY DIFFRACTION (2.1 Å) Cite: The Nrd1-Nab3-Sen1 termination complex interacts with the Ser5-phosphorylated RNA polymerase II C-terminal domain. Nat.Struct.Mol.Biol., 15, 2008
2E5N	Solution structure of the ELL_N2 domain of target of RNA polymerase II elongation factor ELL2 Descriptor: RNA polymerase II elongation factor ELL2 Authors: Dang, W, Muto, Y, Inoue, M, Kigawa, T, Shirouzu, M, Terada, T, Yokoyama, S, RIKEN Structural Genomics/Proteomics Initiative (RSGI) Deposit date: 2006-12-22 Release date: 2007-06-26 Last modified: 2024-05-29 Method: SOLUTION NMR Cite: Solution structure of the ELL_N2 domain of target of RNA polymerase II elongation factor ELL2 To be Published

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