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Protein Structures and Oligomeric States

Enter a protein name, UniProt accession or PDB ID. Name searches ask you to confirm the protein identity before related structures are queried.

Current Protein Identity：Q0P6L9 New Search
33PDB entries
34Biological assembly
34chain/assembly records
Main Difference Dimensions in This Set
Different mutation/modification Different assembly state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics

Difference tags compare only the current result set; every original PDB and assembly record remains separate.

Related-Structure Differences

Each row represents one biological assembly in one PDB entry; multiple monomers of the same protein are listed separately.

PDB Entry Assembly / Oligomeric State Construct Mutations and Modifications Ligands, Ions and Non-polymers Experimental Method Experimental Conditions Structure Quality
6N57 Cryo-EM structure of Escherichia coli RNAP polymerase bound with TraR in conformation I Deposited 2018-11-21 Assembly 1 Protein heterocomplex Heteromer；Protein × 7 PDB declaration: heptameric（7） Consistent with protein count
Chain L 1–613（613 aa）
Not recorded 1N7 CHAPSO × 4 ZN ZINC ION × 3 MG MAGNESIUM ION × 1 ELECTRON MICROSCOPY
cryo-EM buffer pH 8
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.70 Å
6N58 Cryo-EM structure of Escherichia coli RNAP polymerase bound with TraR in conformation II Deposited 2018-11-21 Assembly 1 Protein heterocomplex Heteromer；Protein × 7 PDB declaration: heptameric（7） Consistent with protein count
Chain L 1–613（613 aa）
Not recorded 1N7 CHAPSO × 4 MG MAGNESIUM ION × 1 ZN ZINC ION × 3 ELECTRON MICROSCOPY
cryo-EM buffer pH 8
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.78 Å
6N60 Escherichia coli RNA polymerase sigma70-holoenzyme bound to upstream fork promoter DNA and Microcin J25 (MccJ25) Deposited 2018-11-23 Assembly 1 Protein–DNA Heteromer；Protein × 7 PDB declaration: nonameric（9） Consistent with all polymers
Chain F 1–613（613 aa）
Not recorded MG MAGNESIUM ION × 1 ZN ZINC ION × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6.8；295 K；0.1 M HEPES, pH 6.7, 0.2 M magnesium chloride, 7% w/v PEG3350, 4% v/v glycerol
Resolution 3.68 Å R-free 0.306
6N61 Escherichia coli RNA polymerase sigma70-holoenzyme bound to upstream fork promoter DNA and Capistruin Deposited 2018-11-24 Assembly 1 Protein–DNA Heteromer；Protein × 7 PDB declaration: nonameric（9） Consistent with all polymers
Chain F 1–613（613 aa）
Not recorded EDO 1,2-ETHANEDIOL × 1 MG MAGNESIUM ION × 1 ZN ZINC ION × 2 EPE 4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6.8；295 K；0.1 M HEPES, pH 6.8, 0.2 M magnesium chloride, 7% w/v PEG3350, 4% v/v glycerol, 4% v/v ethylene glycol
Resolution 3.25 Å R-free 0.316
6N62 Escherichia coli RNA polymerase sigma70-holoenzyme bound to upstream fork promoter DNA Deposited 2018-11-24 Assembly 1 Protein–DNA Heteromer；Protein × 6 PDB declaration: octameric（8） Consistent with all polymers
Chain F 1–613（613 aa）
Not recorded MG MAGNESIUM ION × 1 ZN ZINC ION × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6.8；295 K；0.1 M HEPES, pH 6.8, 0.2 M magnesium chloride, 7% w/v PEG3350, 4% v/v glycerol, 4% v/v ethylene glycol
Resolution 3.80 Å R-free 0.334
6OUL Cryo-EM structure of Escherichia coli RNAP polymerase bound to rpsTP2 promoter DNA Deposited 2019-05-04 Assembly 1 Protein–DNA Heteromer；Protein × 7 PDB declaration: nonameric（9） Consistent with all polymers
Chain L 1–613（613 aa）
Not recorded 1N7 CHAPSO × 3 MG MAGNESIUM ION × 1 ZN ZINC ION × 2 ELECTRON MICROSCOPY
cryo-EM buffer pH 8
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.40 Å
6P1K Cryo-EM structure of Escherichia coli sigma70 bound RNAP polymerase holoenzyme Deposited 2019-05-20 Assembly 1 Protein heterocomplex Heteromer；Protein × 6 PDB declaration: hexameric（6） Consistent with protein count
Chain L 1–613（613 aa）
Not recorded MG MAGNESIUM ION × 1 ZN ZINC ION × 2 ELECTRON MICROSCOPY
cryo-EM buffer pH 8
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 4.05 Å
6PSQ Escherichia coli RNA polymerase closed complex (TRPc) with TraR and rpsT P2 promoter Deposited 2019-07-13 Assembly 1 Protein–DNA Heteromer；Protein × 8 PDB declaration: decameric（10） Consistent with all polymers
Chain L 1–613（613 aa）
Not recorded MG MAGNESIUM ION × 1 ZN ZINC ION × 3 1N7 CHAPSO × 4 ELECTRON MICROSCOPY
cryo-EM buffer pH 8
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.40 Å
6PSR Escherichia coli RNA polymerase promoter unwinding intermediate (TRPi1) with TraR and rpsT P2 promoter Deposited 2019-07-13 Assembly 1 Protein–DNA Heteromer；Protein × 8 PDB declaration: decameric（10） Consistent with all polymers
Chain L 1–613（613 aa）
Not recorded 1N7 CHAPSO × 4 MG MAGNESIUM ION × 1 ZN ZINC ION × 3 ELECTRON MICROSCOPY
cryo-EM buffer pH 8
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.40 Å
6PSS Escherichia coli RNA polymerase promoter unwinding intermediate (TRPi1.5a) with TraR and mutant rpsT P2 promoter Deposited 2019-07-13 Assembly 1 Protein–DNA Heteromer；Protein × 8 PDB declaration: decameric（10） Consistent with all polymers
Chain L 1–613（613 aa）
Not recorded MG MAGNESIUM ION × 1 ZN ZINC ION × 3 ELECTRON MICROSCOPY
cryo-EM buffer pH 8
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.50 Å
6PST Escherichia coli RNA polymerase promoter unwinding intermediate (TRPi1.5b) with TraR and mutant rpsT P2 promoter Deposited 2019-07-13 Assembly 1 Protein–DNA Heteromer；Protein × 8 PDB declaration: decameric（10） Consistent with all polymers
Chain L 1–613（613 aa）
Not recorded ZN ZINC ION × 3 1N7 CHAPSO × 4 MG MAGNESIUM ION × 1 ELECTRON MICROSCOPY
cryo-EM buffer pH 8
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.00 Å
6PSU Escherichia coli RNA polymerase promoter unwinding intermediate (TRPi2) with TraR and rpsT P2 promoter Deposited 2019-07-13 Assembly 1 Protein–DNA Heteromer；Protein × 8 PDB declaration: decameric（10） Consistent with all polymers
Chain L 1–613（613 aa）
Not recorded ZN ZINC ION × 3 1N7 CHAPSO × 4 MG MAGNESIUM ION × 1 ELECTRON MICROSCOPY
cryo-EM buffer pH 8
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.90 Å
6PSV Escherichia coli RNA polymerase promoter unwinding intermediate (TpreRPo) with TraR and rpsT P2 promoter Deposited 2019-07-13 Assembly 1 Protein–DNA Heteromer；Protein × 8 PDB declaration: decameric（10） Consistent with all polymers
Chain L 1–613（613 aa）
Not recorded ZN ZINC ION × 3 1N7 CHAPSO × 4 MG MAGNESIUM ION × 1 ELECTRON MICROSCOPY
cryo-EM buffer pH 8
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.50 Å
6PSW Escherichia coli RNA polymerase promoter unwinding intermediate (TRPo) with TraR and rpsT P2 promoter Deposited 2019-07-13 Assembly 1 Protein–DNA Heteromer；Protein × 8 PDB declaration: decameric（10） Consistent with all polymers
Chain L 1–613（613 aa）
Not recorded 1N7 CHAPSO × 2 MG MAGNESIUM ION × 1 ZN ZINC ION × 3 ELECTRON MICROSCOPY
cryo-EM buffer pH 8
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.70 Å
6VJS Escherichia coli RNA polymerase and ureidothiophene-2-carboxylic acid complex Deposited 2020-01-17 Assembly 1 Protein heterocomplex Heteromer；Protein × 6 PDB declaration: hexameric（6） Consistent with protein count
Chain X 1–613（613 aa）
Not recorded QZY 3-{[benzyl(ethyl)carbamoyl]amino}-5-(4-phenoxyphenyl)thiophene-2-carboxylic acid × 1 ZN ZINC ION × 2 MG MAGNESIUM ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8；300 K；0.1M Hepes-NaOH (pH 8), 0.2M CaAcetate, 15% PEG400
Resolution 4.02 Å R-free 0.276
6VJS Escherichia coli RNA polymerase and ureidothiophene-2-carboxylic acid complex Deposited 2020-01-17 Assembly 2 Protein heterocomplex Heteromer；Protein × 6 PDB declaration: hexameric（6） Consistent with protein count
Chain Y 1–613（613 aa）
Not recorded ZN ZINC ION × 2 MG MAGNESIUM ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8；300 K；0.1M Hepes-NaOH (pH 8), 0.2M CaAcetate, 15% PEG400
Resolution 4.02 Å R-free 0.276
6WMU E. coli RNAPs70-SspA-gadA DNA complex Deposited 2020-04-21 Assembly 1 Protein–DNA Heteromer；Protein × 8 PDB declaration: dodecameric（12） Consistent with all polymers
Chain F 1–613（613 aa）
Not recorded MG MAGNESIUM ION × 1 ZN ZINC ION × 2 ELECTRON MICROSCOPY
cryo-EM buffer pH 8
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.18 Å
7BEG Structures of class I bacterial transcription complexes Deposited 2020-12-23 Assembly 1 Protein–DNA Heteromer；Protein × 7 PDB declaration: nonameric（9） Consistent with all polymers
Chain F 1–613（613 aa）
Not recorded No recorded non-water small molecule ELECTRON MICROSCOPY
cryo-EM buffer pH 8；20 mM Tris pH 8, 50 mM NaCl
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 4.20 Å
7C97 Cryo-EM structure of an Escherichia coli RNAP-promoter open complex (RPo) with SspA Deposited 2020-06-05 Assembly 1 Protein–DNA Heteromer；Protein × 9 PDB declaration: undecameric（11） Consistent with all polymers
Chain F 1–613（613 aa）
Not recorded MG MAGNESIUM ION × 1 ZN ZINC ION × 2 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.9
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.68 Å
7CHW Cryo-EM structure of an Escherichia coli RNAP-promoter open complex (RPo) Deposited 2020-07-06 Assembly 1 Protein–DNA Heteromer；Protein × 7 PDB declaration: nonameric（9） Consistent with all polymers
Chain F 1–613（613 aa）
Not recorded MG MAGNESIUM ION × 1 ZN ZINC ION × 2 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.9
Resolution 3.58 Å
7MKD Cryo-EM structure of Escherichia coli RNA polymerase bound to lambda PR promoter DNA (class 1) Deposited 2021-04-23 Assembly 1 Protein–DNA Heteromer；Protein × 7 PDB declaration: nonameric（9） Consistent with all polymers
Chain L 1–613（613 aa）
Not recorded 1N7 CHAPSO × 3 MG MAGNESIUM ION × 1 ZN ZINC ION × 2 ELECTRON MICROSCOPY
cryo-EM buffer pH 8
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.20 Å
7MKE Cryo-EM structure of Escherichia coli RNA polymerase bound to lambda PR promoter DNA (class 2) Deposited 2021-04-23 Assembly 1 Protein–DNA Heteromer；Protein × 6 PDB declaration: octameric（8） Consistent with all polymers
Chain L 1–613（613 aa）
Not recorded 1N7 CHAPSO × 4 MG MAGNESIUM ION × 1 ZN ZINC ION × 2 ELECTRON MICROSCOPY
cryo-EM buffer pH 8
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.70 Å
7MKI Cryo-EM structure of Escherichia coli RNA polymerase bound to lambda PR (-5G to C) promoter DNA Deposited 2021-04-23 Assembly 1 Protein–DNA Heteromer；Protein × 6 PDB declaration: octameric（8） Consistent with all polymers
Chain L 1–613（613 aa）
Not recorded 1N7 CHAPSO × 3 MG MAGNESIUM ION × 1 ZN ZINC ION × 2 ELECTRON MICROSCOPY
cryo-EM buffer pH 8
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.50 Å
7MKJ Cryo-EM structure of Escherichia coli RNA polymerase bound to T7A1 promoter DNA Deposited 2021-04-23 Assembly 1 Protein–DNA Heteromer；Protein × 7 PDB declaration: nonameric（9） Consistent with all polymers
Chain L 1–613（613 aa）
Not recorded 1N7 CHAPSO × 3 MG MAGNESIUM ION × 1 ZN ZINC ION × 2 ELECTRON MICROSCOPY
cryo-EM buffer pH 8
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 2.90 Å
7N4E Escherichia coli sigma 70-dependent paused transcription elongation complex Deposited 2021-06-04 Assembly 1 Other combination Heteromer；Protein × 6 PDB declaration: nonameric（9） Consistent with all polymers
Chain F 1–613（613 aa）
Mutation：R541C, L607P ZN ZINC ION × 2 MG MAGNESIUM ION × 1 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.9
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.80 Å
7UBM Transcription antitermination complex: "pre-engaged" Qlambda-loading complex Deposited 2022-03-15 Assembly 1 Other combination Heteromer；Protein × 7 PDB declaration: decameric（10） Consistent with all polymers
Chain F 1–613（613 aa）
Not recorded ZN ZINC ION × 3 MG MAGNESIUM ION × 1 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.9
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.13 Å
7UBN Transcription antitermination complex: NusA-containing "engaged" Qlambda-loading complex Deposited 2022-03-15 Assembly 1 Other combination Heteromer；Protein × 8 PDB declaration: undecameric（11） Consistent with all polymers
Chain F 1–613（613 aa）
Not recorded ZN ZINC ION × 3 MG MAGNESIUM ION × 1 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.9
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.36 Å
8FTD Structure of Escherichia coli CedA in complex with transcription initiation complex Deposited 2023-01-11 Assembly 1 Protein–DNA Heteromer；Protein × 8 PDB declaration: decameric（10） Consistent with all polymers
Chain L 1–613（613 aa）
Not recorded 1N7 CHAPSO × 3 MG MAGNESIUM ION × 1 ZN ZINC ION × 2 ELECTRON MICROSCOPY
cryo-EM buffer pH 8
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 2.76 Å
8JO2 Structural basis of transcriptional activation by the OmpR/PhoB-family response regulator PmrA Deposited 2023-06-06 Assembly 1 Protein–DNA Heteromer；Protein × 8 PDB declaration: decameric（10） Consistent with all polymers
Chain F 1–613（613 aa）
Not recorded No recorded non-water small molecule ELECTRON MICROSCOPY
cryo-EM buffer pH 7.3
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 2.74 Å
8TO1 Escherichia coli RNA polymerase unwinding intermediate (I1a) at the lambda PR promoter Deposited 2023-08-02 Assembly 1 Protein–DNA Heteromer；Protein × 7 PDB declaration: nonameric（9） Consistent with all polymers
Chain L 1–613（613 aa）
Not recorded 4QM (3R,5S,7R,8R,9S,10S,12S,13R,14S,17R)-10,13-dimethyl-17-[(2R)-pentan-2-yl]-2,3,4,5,6,7,8,9,11,12,14,15,16,17-tetradecahydro-1H-cyclopenta[a]phenanthrene-3,7,12-triol × 4 MG MAGNESIUM ION × 1 ZN ZINC ION × 2 ELECTRON MICROSCOPY
cryo-EM buffer pH 8
cryo-EM vitrification conditions Cryogen ETHANE；CHAPSO was added (from 80 mM stock) to 8 mM final in each sample just prior to spray mixing.
Resolution 2.80 Å
8TO6 Escherichia coli RNA polymerase unwinding intermediate (I1d) at the lambda PR promoter Deposited 2023-08-02 Assembly 1 Protein–DNA Heteromer；Protein × 7 PDB declaration: nonameric（9） Consistent with all polymers
Chain L 1–613（613 aa）
Not recorded 4QM (3R,5S,7R,8R,9S,10S,12S,13R,14S,17R)-10,13-dimethyl-17-[(2R)-pentan-2-yl]-2,3,4,5,6,7,8,9,11,12,14,15,16,17-tetradecahydro-1H-cyclopenta[a]phenanthrene-3,7,12-triol × 3 MG MAGNESIUM ION × 1 ZN ZINC ION × 2 ELECTRON MICROSCOPY
cryo-EM buffer pH 8
cryo-EM vitrification conditions Cryogen ETHANE；CHAPSO was added (from 80 mM stock) to 8 mM final in each sample just prior to spray mixing.
Resolution 2.90 Å
8TOE Escherichia coli RNA polymerase unwinding intermediate (I1c) at the lambda PR promoter Deposited 2023-08-03 Assembly 1 Protein–DNA Heteromer；Protein × 7 PDB declaration: nonameric（9） Consistent with all polymers
Chain L 1–613（613 aa）
Not recorded 1N7 CHAPSO × 3 MG MAGNESIUM ION × 1 ZN ZINC ION × 2 ELECTRON MICROSCOPY
cryo-EM buffer pH 8
cryo-EM vitrification conditions Cryogen ETHANE；CHAPSO was added (from 80 mM stock) to 8 mM final in each sample just prior to spray mixing.
Resolution 2.90 Å
8TOM Escherichia coli RNA polymerase closed complex intermediate at the lambda PR promoter Deposited 2023-08-03 Assembly 1 Protein–DNA Heteromer；Protein × 7 PDB declaration: nonameric（9） Consistent with all polymers
Chain L 1–613（613 aa）
Not recorded 1N7 CHAPSO × 4 MG MAGNESIUM ION × 1 ZN ZINC ION × 2 ELECTRON MICROSCOPY
cryo-EM buffer pH 8
cryo-EM vitrification conditions Cryogen ETHANE；CHAPSO was added (from 80 mM stock) to 8 mM final.
Resolution 3.10 Å
8Y6U Cryo-EM structure of E.coli transcription initiation complex with transcription factor GcvA Deposited 2024-02-03 Assembly 1 Protein–DNA Heteromer；Protein × 9 PDB declaration: 11-meric（11） Consistent with all polymers
Chain F 1–613（613 aa）
Not recorded No recorded non-water small molecule ELECTRON MICROSCOPY
cryo-EM buffer pH 7.9
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.97 Å

This page presents structural evidence recorded in PDB/mmCIF.“No recorded non-water small molecule” does not prove that the experimental sample was ligand-free; experimental conditions belong to the PDB experiment, while ligands and copy counts are shown for each biological assembly.