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1l9z

Thermus aquaticus RNA Polymerase Holoenzyme/Fork-Junction Promoter DNA Complex at 6.5 A Resolution

Method: X-RAY DIFFRACTION Dmax: 163.5 Å Quality: GOOD
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1. Protein Identity and Related Structures Protein Identity & Related Structures

RNA POLYMERASE, ALPHA SUBUNIT

OrganismNot specified

UniProt Q9KWU8

State in the Current Structure

Assembly Oligomeric State Construct Mutations and Modifications Ligands, Ions and Associated Components Method and Experimental Conditions Structure Quality
1 Protein–DNA Heteromer Protein × 6 DNA 2 PDB declaration: octameric（8） Consistent with all polymer counts Chain A； UniProt 1–314 Chain B； UniProt 1–314 Not recorded nontemplate DNA strand × 1 template DNA strand × 1 RNA POLYMERASE, BETA SUBUNIT × 1 （Q9KWU7） RNA POLYMERASE, BETA-PRIME SUBUNIT × 1 （Q9KWU6） RNA POLYMERASE, OMEGA SUBUNIT × 1 （Q9EVV4） SIGMA FACTOR SIGA × 1 （Q9EZJ8） MG MAGNESIUM ION × 1 ZN ZINC ION × 2 X-RAY DIFFRACTION X-ray crystallization conditions：VAPOR DIFFUSION, HANGING DROP；pH 8；277 K；ammonium sulfate, Tris, Magnesium chloride, pH 8, VAPOR DIFFUSION, HANGING DROP, temperature 277K Resolution 6.50 Å

Other States of the Same Protein in the Database

Each row is a biological assembly of the same UniProt protein in another PDB entry. The “Difference from current entry” column identifies evidence-level differences; no tag means the currently parsed fields agree.

Other PDB Difference from Current Entry 1L9Z Assembly / Oligomeric State Construct Mutations and Modifications Ligands, Ions and Non-polymers Method and Experimental Conditions Structure Quality
1HQM CRYSTAL STRUCTURE OF THERMUS AQUATICUS CORE RNA POLYMERASE-INCLUDES COMPLETE STRUCTURE WITH SIDE-CHAINS (EXCEPT FOR DISORDERED REGIONS)-FURTHER REFINED FROM ORIGINAL DEPOSITION-CONTAINS ADDITIONAL SEQUENCE INFORMATION Deposited 2000-12-18 Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 5 PDB declaration: pentameric
Chain A 1–314（314 aa）
Chain B 1–314（314 aa）
Not recorded MG MAGNESIUM ION × 1 ZN ZINC ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8；298 K；ammonium sulfate, magnesium chloride, Tris-HCl, pH 8.0, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Resolution 3.30 Å R-free 0.360
1I6V THERMUS AQUATICUS CORE RNA POLYMERASE-RIFAMPICIN COMPLEX Deposited 2001-03-05 Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 5 PDB declaration: pentameric
Chain A 1–314（314 aa） Fragment：ALPHA SUBUNIT
Chain B 1–314（314 aa） Fragment：ALPHA SUBUNIT
Not recorded RFP RIFAMPICIN × 1 MG MAGNESIUM ION × 1 ZN ZINC ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8；298 K；Tris-HCl, Ammonium Sulfate, Magensium Chloride, pH 8, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Resolution 3.30 Å R-free 0.359
1L9U THERMUS AQUATICUS RNA POLYMERASE HOLOENZYME AT 4 A RESOLUTION Deposited 2002-03-26 Different oligomeric state Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 6 PDB declaration: hexameric
Chain A 1–314（314 aa）
Chain B 1–314（314 aa）
Not recorded MG MAGNESIUM ION × 1 ZN ZINC ION × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8；298 K；HEPES, sodium formate, pH 8, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Resolution 4.00 Å
1L9U THERMUS AQUATICUS RNA POLYMERASE HOLOENZYME AT 4 A RESOLUTION Deposited 2002-03-26 Different oligomeric state Different experimental conditions Different structure-quality metrics Assembly 2 Protein heterocomplex Heteromer；Protein × 6 PDB declaration: hexameric
Chain J 1–314（314 aa）
Chain K 1–314（314 aa）
Not recorded MG MAGNESIUM ION × 1 ZN ZINC ION × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8；298 K；HEPES, sodium formate, pH 8, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Resolution 4.00 Å
1YNJ Taq RNA polymerase-Sorangicin complex Deposited 2005-01-24 Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 6 PDB declaration: hexameric
Chain A 1–314（314 aa）
Chain B 1–314（314 aa）
Not recorded SRN SORANGICIN A × 1 ZN ZINC ION × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8；295 K；Tris, ammonium formate, magnesium formate, pH 8, VAPOR DIFFUSION, HANGING DROP, temperature 295K
Resolution 3.20 Å R-free 0.346
1YNN Taq RNA polymerase-rifampicin complex Deposited 2005-01-24 Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 6 PDB declaration: hexameric
Chain A 1–314（314 aa）
Chain B 1–314（314 aa）
Not recorded RFP RIFAMPICIN × 1 ZN ZINC ION × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8；295 K；Tris, magnesium sulfate, ammonium sulfate, pH 8, VAPOR DIFFUSION, HANGING DROP, temperature 295K
Resolution 3.30 Å R-free 0.331
2GHO Recombinant Thermus aquaticus RNA polymerase for Structural Studies Deposited 2006-03-27 Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric
Chain A 1–314（314 aa）
Chain B 1–314（314 aa）
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6；295 K；0.05 M Na cacodylate 10 mM MgCl2 1.0 M Li2SO4, pH 6.0, VAPOR DIFFUSION, HANGING DROP, temperature 295K
Resolution 5.00 Å R-free 0.337
4XLN Crystal structure of T. aquaticus transcription initiation complex containing bubble promoter and RNA Deposited 2015-01-13 Different oligomeric state Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 6 PDB declaration: nonameric
Chain A 1–314（314 aa）
Chain B 1–314（314 aa）
Not recorded ZN ZINC ION × 2 MG MAGNESIUM ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8；293 K；ammonium sulfate, magnesium chloride, Tris-HCl
Resolution 4.00 Å R-free 0.315
4XLN Crystal structure of T. aquaticus transcription initiation complex containing bubble promoter and RNA Deposited 2015-01-13 Different oligomeric state Different experimental conditions Different structure-quality metrics Assembly 2 Other combination Heteromer；Protein × 6 PDB declaration: nonameric
Chain G 1–314（314 aa）
Chain H 1–314（314 aa）
Not recorded ZN ZINC ION × 2 MG MAGNESIUM ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8；293 K；ammonium sulfate, magnesium chloride, Tris-HCl
Resolution 4.00 Å R-free 0.315
4XLP Crystal structure of T.aquaticus transcription initiation complex containing upstream fork promoter Deposited 2015-01-13 Different experimental conditions Different structure-quality metrics Assembly 1 Protein–DNA Heteromer；Protein × 6 PDB declaration: octameric
Chain A 1–314（314 aa）
Chain B 1–314（314 aa）
Not recorded ZN ZINC ION × 2 MG MAGNESIUM ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8；293 K；ammonium sulfate, magnesium chloride, Tris-HCl
Resolution 4.00 Å R-free 0.297
4XLP Crystal structure of T.aquaticus transcription initiation complex containing upstream fork promoter Deposited 2015-01-13 Different experimental conditions Different structure-quality metrics Assembly 2 Protein–DNA Heteromer；Protein × 6 PDB declaration: octameric
Chain G 1–314（314 aa）
Chain H 1–314（314 aa）
Not recorded ZN ZINC ION × 2 MG MAGNESIUM ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8；293 K；ammonium sulfate, magnesium chloride, Tris-HCl
Resolution 4.00 Å R-free 0.297
4XLQ Crystal structure of T.aquaticus transcription initiation complex containing upstream fork (-11 base-paired) promoter Deposited 2015-01-13 Different experimental conditions Different structure-quality metrics Assembly 1 Protein–DNA Heteromer；Protein × 6 PDB declaration: octameric
Chain A 1–314（314 aa）
Chain B 1–314（314 aa）
Not recorded ZN ZINC ION × 2 MG MAGNESIUM ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8；293 K；ammonium sulfate, magnesium chloride, Tris-HCl
Resolution 4.60 Å R-free 0.281
4XLQ Crystal structure of T.aquaticus transcription initiation complex containing upstream fork (-11 base-paired) promoter Deposited 2015-01-13 Different experimental conditions Different structure-quality metrics Assembly 2 Protein–DNA Heteromer；Protein × 6 PDB declaration: octameric
Chain G 1–314（314 aa）
Chain H 1–314（314 aa）
Not recorded ZN ZINC ION × 2 MG MAGNESIUM ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8；293 K；ammonium sulfate, magnesium chloride, Tris-HCl
Resolution 4.60 Å R-free 0.281
4XLR Crystal structure of T.aquaticus transcription initiation complex with CarD containing bubble promoter and RNA Deposited 2015-01-13 Different oligomeric state Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 7 PDB declaration: decameric
Chain A 1–314（314 aa）
Chain B 1–314（314 aa）
Not recorded ZN ZINC ION × 2 MG MAGNESIUM ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8；293 K；ammonium sulfate, magnesium chloride, Tris-HCl
Resolution 4.30 Å R-free 0.310
4XLR Crystal structure of T.aquaticus transcription initiation complex with CarD containing bubble promoter and RNA Deposited 2015-01-13 Different oligomeric state Different experimental conditions Different structure-quality metrics Assembly 2 Other combination Heteromer；Protein × 7 PDB declaration: decameric
Chain G 1–314（314 aa）
Chain H 1–314（314 aa）
Not recorded ZN ZINC ION × 2 MG MAGNESIUM ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8；293 K；ammonium sulfate, magnesium chloride, Tris-HCl
Resolution 4.30 Å R-free 0.310
4XLS Crystal structure of T. aquaticus transcription initiation complex with CarD containing upstream fork promoter. Deposited 2015-01-13 Different oligomeric state Different experimental conditions Different structure-quality metrics Assembly 1 Protein–DNA Heteromer；Protein × 7 PDB declaration: nonameric
Chain A 1–314（314 aa）
Chain B 1–314（314 aa）
Not recorded ZN ZINC ION × 2 MG MAGNESIUM ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8；293 K；ammonium sulfate, magnesium chloride, Tris-HCl
Resolution 4.01 Å R-free 0.272
4XLS Crystal structure of T. aquaticus transcription initiation complex with CarD containing upstream fork promoter. Deposited 2015-01-13 Different oligomeric state Different experimental conditions Different structure-quality metrics Assembly 2 Protein–DNA Heteromer；Protein × 7 PDB declaration: nonameric
Chain G 1–314（314 aa）
Chain H 1–314（314 aa）
Not recorded ZN ZINC ION × 2 MG MAGNESIUM ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8；293 K；ammonium sulfate, magnesium chloride, Tris-HCl
Resolution 4.01 Å R-free 0.272
4XLS Crystal structure of T. aquaticus transcription initiation complex with CarD containing upstream fork promoter. Deposited 2015-01-13 Different experimental conditions Different structure-quality metrics Assembly 3 Protein–DNA Heteromer；Protein × 6 PDB declaration: octameric
Chain A 1–314（314 aa）
Chain B 1–314（314 aa）
Not recorded ZN ZINC ION × 2 MG MAGNESIUM ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8；293 K；ammonium sulfate, magnesium chloride, Tris-HCl
Resolution 4.01 Å R-free 0.272
4XLS Crystal structure of T. aquaticus transcription initiation complex with CarD containing upstream fork promoter. Deposited 2015-01-13 Different experimental conditions Different structure-quality metrics Assembly 4 Protein–DNA Heteromer；Protein × 6 PDB declaration: octameric
Chain G 1–314（314 aa）
Chain H 1–314（314 aa）
Not recorded ZN ZINC ION × 2 MG MAGNESIUM ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8；293 K；ammonium sulfate, magnesium chloride, Tris-HCl
Resolution 4.01 Å R-free 0.272
5TJG Thermus aquaticus delta1.1-sigmaA holoenzyme/downstream-fork promoter complex with an open clamp Deposited 2016-10-04 Different oligomeric state Different experimental conditions Different structure-quality metrics Assembly 1 Protein–DNA Heteromer；Protein × 6 PDB declaration: heptameric
Chain A 1–314（314 aa）
Chain B 1–314（314 aa）
Not recorded ZN ZINC ION × 2 MG MAGNESIUM ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6.5；295 K；0.1 M MES, pH 6.5, 50 mM MgCl2, 5-8% (w/v) polyethylene glycol, 10% (v/v) isopropanol
Resolution 2.60 Å R-free 0.262

12 other PDB entries and 20 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name RPOA_THEAQ
Isoform —
PDB entities 3
Chains and sequence ranges Author chain A； PDBConstruct 1–314； UniProt 1–314 Author chain B； PDBConstruct 1–314； UniProt 1–314

RNA POLYMERASE, BETA SUBUNIT

OrganismNot specified

UniProt Q9KWU7

State in the Current Structure

Assembly Oligomeric State Construct Mutations and Modifications Ligands, Ions and Associated Components Method and Experimental Conditions Structure Quality
1 Protein–DNA Heteromer Protein × 6 DNA 2 PDB declaration: octameric（8） Consistent with all polymer counts Chain C； UniProt 1–1119 Not recorded nontemplate DNA strand × 1 template DNA strand × 1 RNA POLYMERASE, ALPHA SUBUNIT × 2 （Q9KWU8） RNA POLYMERASE, BETA-PRIME SUBUNIT × 1 （Q9KWU6） RNA POLYMERASE, OMEGA SUBUNIT × 1 （Q9EVV4） SIGMA FACTOR SIGA × 1 （Q9EZJ8） MG MAGNESIUM ION × 1 ZN ZINC ION × 2 X-RAY DIFFRACTION X-ray crystallization conditions：VAPOR DIFFUSION, HANGING DROP；pH 8；277 K；ammonium sulfate, Tris, Magnesium chloride, pH 8, VAPOR DIFFUSION, HANGING DROP, temperature 277K Resolution 6.50 Å

Other States of the Same Protein in the Database

Each row is a biological assembly of the same UniProt protein in another PDB entry. The “Difference from current entry” column identifies evidence-level differences; no tag means the currently parsed fields agree.

Other PDB Difference from Current Entry 1L9Z Assembly / Oligomeric State Construct Mutations and Modifications Ligands, Ions and Non-polymers Method and Experimental Conditions Structure Quality
1HQM CRYSTAL STRUCTURE OF THERMUS AQUATICUS CORE RNA POLYMERASE-INCLUDES COMPLETE STRUCTURE WITH SIDE-CHAINS (EXCEPT FOR DISORDERED REGIONS)-FURTHER REFINED FROM ORIGINAL DEPOSITION-CONTAINS ADDITIONAL SEQUENCE INFORMATION Deposited 2000-12-18 Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 5 PDB declaration: pentameric
Chain C 1–1119（1119 aa）
Not recorded MG MAGNESIUM ION × 1 ZN ZINC ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8；298 K；ammonium sulfate, magnesium chloride, Tris-HCl, pH 8.0, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Resolution 3.30 Å R-free 0.360
1I6V THERMUS AQUATICUS CORE RNA POLYMERASE-RIFAMPICIN COMPLEX Deposited 2001-03-05 Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 5 PDB declaration: pentameric
Chain C 1–1119（1119 aa） Fragment：BETA SUBUNIT
Not recorded RFP RIFAMPICIN × 1 MG MAGNESIUM ION × 1 ZN ZINC ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8；298 K；Tris-HCl, Ammonium Sulfate, Magensium Chloride, pH 8, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Resolution 3.30 Å R-free 0.359
1L9U THERMUS AQUATICUS RNA POLYMERASE HOLOENZYME AT 4 A RESOLUTION Deposited 2002-03-26 Different oligomeric state Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 6 PDB declaration: hexameric
Chain C 1–1119（1119 aa）
Not recorded MG MAGNESIUM ION × 1 ZN ZINC ION × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8；298 K；HEPES, sodium formate, pH 8, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Resolution 4.00 Å
1L9U THERMUS AQUATICUS RNA POLYMERASE HOLOENZYME AT 4 A RESOLUTION Deposited 2002-03-26 Different oligomeric state Different experimental conditions Different structure-quality metrics Assembly 2 Protein heterocomplex Heteromer；Protein × 6 PDB declaration: hexameric
Chain L 1–1119（1119 aa）
Not recorded MG MAGNESIUM ION × 1 ZN ZINC ION × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8；298 K；HEPES, sodium formate, pH 8, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Resolution 4.00 Å
1YNJ Taq RNA polymerase-Sorangicin complex Deposited 2005-01-24 Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 6 PDB declaration: hexameric
Chain C 1–1119（1119 aa）
Not recorded SRN SORANGICIN A × 1 ZN ZINC ION × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8；295 K；Tris, ammonium formate, magnesium formate, pH 8, VAPOR DIFFUSION, HANGING DROP, temperature 295K
Resolution 3.20 Å R-free 0.346
1YNN Taq RNA polymerase-rifampicin complex Deposited 2005-01-24 Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 6 PDB declaration: hexameric
Chain C 1–1119（1119 aa）
Not recorded RFP RIFAMPICIN × 1 ZN ZINC ION × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8；295 K；Tris, magnesium sulfate, ammonium sulfate, pH 8, VAPOR DIFFUSION, HANGING DROP, temperature 295K
Resolution 3.30 Å R-free 0.331
2GHO Recombinant Thermus aquaticus RNA polymerase for Structural Studies Deposited 2006-03-27 Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric
Chain C 1–1119（1119 aa）
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6；295 K；0.05 M Na cacodylate 10 mM MgCl2 1.0 M Li2SO4, pH 6.0, VAPOR DIFFUSION, HANGING DROP, temperature 295K
Resolution 5.00 Å R-free 0.337
3MLQ Crystal structure of the Thermus thermophilus transcription-repair coupling factor RNA polymerase interacting domain with the Thermus aquaticus RNA polymerase beta1 domain Deposited 2010-04-18 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric
Chain A 17–139（123 aa） Fragment：beta1 domain (UNP residues 17-139 and 334-395)
Chain A 334–395（62 aa） Fragment：beta1 domain (UNP residues 17-139 and 334-395)
Not recorded PO4 PHOSPHATE ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.5；295 K；0.1 M Tris-HCl, 1.6 M di-potassium ammonium phosphate, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 295K
Resolution 2.91 Å R-free 0.250
3MLQ Crystal structure of the Thermus thermophilus transcription-repair coupling factor RNA polymerase interacting domain with the Thermus aquaticus RNA polymerase beta1 domain Deposited 2010-04-18 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 2 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric
Chain B 17–139（123 aa） Fragment：beta1 domain (UNP residues 17-139 and 334-395)
Chain B 334–395（62 aa） Fragment：beta1 domain (UNP residues 17-139 and 334-395)
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.5；295 K；0.1 M Tris-HCl, 1.6 M di-potassium ammonium phosphate, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 295K
Resolution 2.91 Å R-free 0.250
3MLQ Crystal structure of the Thermus thermophilus transcription-repair coupling factor RNA polymerase interacting domain with the Thermus aquaticus RNA polymerase beta1 domain Deposited 2010-04-18 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 3 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric
Chain C 17–139（123 aa） Fragment：beta1 domain (UNP residues 17-139 and 334-395)
Chain C 334–395（62 aa） Fragment：beta1 domain (UNP residues 17-139 and 334-395)
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.5；295 K；0.1 M Tris-HCl, 1.6 M di-potassium ammonium phosphate, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 295K
Resolution 2.91 Å R-free 0.250
3MLQ Crystal structure of the Thermus thermophilus transcription-repair coupling factor RNA polymerase interacting domain with the Thermus aquaticus RNA polymerase beta1 domain Deposited 2010-04-18 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 4 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric
Chain D 17–139（123 aa） Fragment：beta1 domain (UNP residues 17-139 and 334-395)
Chain D 334–395（62 aa） Fragment：beta1 domain (UNP residues 17-139 and 334-395)
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.5；295 K；0.1 M Tris-HCl, 1.6 M di-potassium ammonium phosphate, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 295K
Resolution 2.91 Å R-free 0.250
4XAX Crystal structure of Thermus thermophilus CarD in complex with the Thermus aquaticus RNA polymerase beta1 domain Deposited 2014-12-15 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric
Chain A 17–139（123 aa）
Chain A 334–392（59 aa）
Not recorded EDO 1,2-ETHANEDIOL × 5 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 5；295 K；Ammonium sulfate, sodium acetate, ethylene gycol
Resolution 2.40 Å R-free 0.180
4XLN Crystal structure of T. aquaticus transcription initiation complex containing bubble promoter and RNA Deposited 2015-01-13 Different oligomeric state Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 6 PDB declaration: nonameric
Chain C 1–1119（1119 aa）
Not recorded ZN ZINC ION × 2 MG MAGNESIUM ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8；293 K；ammonium sulfate, magnesium chloride, Tris-HCl
Resolution 4.00 Å R-free 0.315
4XLN Crystal structure of T. aquaticus transcription initiation complex containing bubble promoter and RNA Deposited 2015-01-13 Different oligomeric state Different experimental conditions Different structure-quality metrics Assembly 2 Other combination Heteromer；Protein × 6 PDB declaration: nonameric
Chain I 1–1119（1119 aa）
Not recorded ZN ZINC ION × 2 MG MAGNESIUM ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8；293 K；ammonium sulfate, magnesium chloride, Tris-HCl
Resolution 4.00 Å R-free 0.315
4XLP Crystal structure of T.aquaticus transcription initiation complex containing upstream fork promoter Deposited 2015-01-13 Different experimental conditions Different structure-quality metrics Assembly 1 Protein–DNA Heteromer；Protein × 6 PDB declaration: octameric
Chain C 1–1119（1119 aa）
Not recorded ZN ZINC ION × 2 MG MAGNESIUM ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8；293 K；ammonium sulfate, magnesium chloride, Tris-HCl
Resolution 4.00 Å R-free 0.297
4XLP Crystal structure of T.aquaticus transcription initiation complex containing upstream fork promoter Deposited 2015-01-13 Different experimental conditions Different structure-quality metrics Assembly 2 Protein–DNA Heteromer；Protein × 6 PDB declaration: octameric
Chain I 1–1119（1119 aa）
Not recorded ZN ZINC ION × 2 MG MAGNESIUM ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8；293 K；ammonium sulfate, magnesium chloride, Tris-HCl
Resolution 4.00 Å R-free 0.297
4XLQ Crystal structure of T.aquaticus transcription initiation complex containing upstream fork (-11 base-paired) promoter Deposited 2015-01-13 Different experimental conditions Different structure-quality metrics Assembly 1 Protein–DNA Heteromer；Protein × 6 PDB declaration: octameric
Chain C 1–1119（1119 aa）
Not recorded ZN ZINC ION × 2 MG MAGNESIUM ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8；293 K；ammonium sulfate, magnesium chloride, Tris-HCl
Resolution 4.60 Å R-free 0.281
4XLQ Crystal structure of T.aquaticus transcription initiation complex containing upstream fork (-11 base-paired) promoter Deposited 2015-01-13 Different experimental conditions Different structure-quality metrics Assembly 2 Protein–DNA Heteromer；Protein × 6 PDB declaration: octameric
Chain I 1–1119（1119 aa）
Not recorded ZN ZINC ION × 2 MG MAGNESIUM ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8；293 K；ammonium sulfate, magnesium chloride, Tris-HCl
Resolution 4.60 Å R-free 0.281
4XLR Crystal structure of T.aquaticus transcription initiation complex with CarD containing bubble promoter and RNA Deposited 2015-01-13 Different oligomeric state Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 7 PDB declaration: decameric
Chain C 1–1119（1119 aa）
Not recorded ZN ZINC ION × 2 MG MAGNESIUM ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8；293 K；ammonium sulfate, magnesium chloride, Tris-HCl
Resolution 4.30 Å R-free 0.310
4XLR Crystal structure of T.aquaticus transcription initiation complex with CarD containing bubble promoter and RNA Deposited 2015-01-13 Different oligomeric state Different experimental conditions Different structure-quality metrics Assembly 2 Other combination Heteromer；Protein × 7 PDB declaration: decameric
Chain I 1–1119（1119 aa）
Not recorded ZN ZINC ION × 2 MG MAGNESIUM ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8；293 K；ammonium sulfate, magnesium chloride, Tris-HCl
Resolution 4.30 Å R-free 0.310
4XLS Crystal structure of T. aquaticus transcription initiation complex with CarD containing upstream fork promoter. Deposited 2015-01-13 Different oligomeric state Different experimental conditions Different structure-quality metrics Assembly 1 Protein–DNA Heteromer；Protein × 7 PDB declaration: nonameric
Chain C 1–1119（1119 aa）
Not recorded ZN ZINC ION × 2 MG MAGNESIUM ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8；293 K；ammonium sulfate, magnesium chloride, Tris-HCl
Resolution 4.01 Å R-free 0.272
4XLS Crystal structure of T. aquaticus transcription initiation complex with CarD containing upstream fork promoter. Deposited 2015-01-13 Different oligomeric state Different experimental conditions Different structure-quality metrics Assembly 2 Protein–DNA Heteromer；Protein × 7 PDB declaration: nonameric
Chain I 1–1119（1119 aa）
Not recorded ZN ZINC ION × 2 MG MAGNESIUM ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8；293 K；ammonium sulfate, magnesium chloride, Tris-HCl
Resolution 4.01 Å R-free 0.272
4XLS Crystal structure of T. aquaticus transcription initiation complex with CarD containing upstream fork promoter. Deposited 2015-01-13 Different experimental conditions Different structure-quality metrics Assembly 3 Protein–DNA Heteromer；Protein × 6 PDB declaration: octameric
Chain C 1–1119（1119 aa）
Not recorded ZN ZINC ION × 2 MG MAGNESIUM ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8；293 K；ammonium sulfate, magnesium chloride, Tris-HCl
Resolution 4.01 Å R-free 0.272
4XLS Crystal structure of T. aquaticus transcription initiation complex with CarD containing upstream fork promoter. Deposited 2015-01-13 Different experimental conditions Different structure-quality metrics Assembly 4 Protein–DNA Heteromer；Protein × 6 PDB declaration: octameric
Chain I 1–1119（1119 aa）
Not recorded ZN ZINC ION × 2 MG MAGNESIUM ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8；293 K；ammonium sulfate, magnesium chloride, Tris-HCl
Resolution 4.01 Å R-free 0.272
5TJG Thermus aquaticus delta1.1-sigmaA holoenzyme/downstream-fork promoter complex with an open clamp Deposited 2016-10-04 Different oligomeric state Different experimental conditions Different structure-quality metrics Assembly 1 Protein–DNA Heteromer；Protein × 6 PDB declaration: heptameric
Chain C 1–1119（1119 aa）
Not recorded ZN ZINC ION × 2 MG MAGNESIUM ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6.5；295 K；0.1 M MES, pH 6.5, 50 mM MgCl2, 5-8% (w/v) polyethylene glycol, 10% (v/v) isopropanol
Resolution 2.60 Å R-free 0.262

14 other PDB entries and 25 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name RPOB_THEAQ
Isoform —
PDB entities 4
Chains and sequence ranges Author chain C； PDBConstruct 1–1118； UniProt 1–1119

RNA POLYMERASE, BETA-PRIME SUBUNIT

OrganismNot specified

UniProt Q9KWU6

State in the Current Structure

Assembly Oligomeric State Construct Mutations and Modifications Ligands, Ions and Associated Components Method and Experimental Conditions Structure Quality
1 Protein–DNA Heteromer Protein × 6 DNA 2 PDB declaration: octameric（8） Consistent with all polymer counts Chain D； UniProt 1–1524 Not recorded nontemplate DNA strand × 1 template DNA strand × 1 RNA POLYMERASE, ALPHA SUBUNIT × 2 （Q9KWU8） RNA POLYMERASE, BETA SUBUNIT × 1 （Q9KWU7） RNA POLYMERASE, OMEGA SUBUNIT × 1 （Q9EVV4） SIGMA FACTOR SIGA × 1 （Q9EZJ8） MG MAGNESIUM ION × 1 ZN ZINC ION × 2 X-RAY DIFFRACTION X-ray crystallization conditions：VAPOR DIFFUSION, HANGING DROP；pH 8；277 K；ammonium sulfate, Tris, Magnesium chloride, pH 8, VAPOR DIFFUSION, HANGING DROP, temperature 277K Resolution 6.50 Å

Other States of the Same Protein in the Database

Each row is a biological assembly of the same UniProt protein in another PDB entry. The “Difference from current entry” column identifies evidence-level differences; no tag means the currently parsed fields agree.

Other PDB Difference from Current Entry 1L9Z Assembly / Oligomeric State Construct Mutations and Modifications Ligands, Ions and Non-polymers Method and Experimental Conditions Structure Quality
1HQM CRYSTAL STRUCTURE OF THERMUS AQUATICUS CORE RNA POLYMERASE-INCLUDES COMPLETE STRUCTURE WITH SIDE-CHAINS (EXCEPT FOR DISORDERED REGIONS)-FURTHER REFINED FROM ORIGINAL DEPOSITION-CONTAINS ADDITIONAL SEQUENCE INFORMATION Deposited 2000-12-18 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 5 PDB declaration: pentameric
Chain D 1–155（155 aa）
Chain D 452–1524（1073 aa）
Not recorded MG MAGNESIUM ION × 1 ZN ZINC ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8；298 K；ammonium sulfate, magnesium chloride, Tris-HCl, pH 8.0, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Resolution 3.30 Å R-free 0.360
1I6V THERMUS AQUATICUS CORE RNA POLYMERASE-RIFAMPICIN COMPLEX Deposited 2001-03-05 Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 5 PDB declaration: pentameric
Chain D 1–1524（1524 aa） Fragment：BETA-PRIME SUBUNIT
Not recorded RFP RIFAMPICIN × 1 MG MAGNESIUM ION × 1 ZN ZINC ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8；298 K；Tris-HCl, Ammonium Sulfate, Magensium Chloride, pH 8, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Resolution 3.30 Å R-free 0.359
1L9U THERMUS AQUATICUS RNA POLYMERASE HOLOENZYME AT 4 A RESOLUTION Deposited 2002-03-26 Different oligomeric state Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 6 PDB declaration: hexameric
Chain D 1–1524（1524 aa）
Not recorded MG MAGNESIUM ION × 1 ZN ZINC ION × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8；298 K；HEPES, sodium formate, pH 8, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Resolution 4.00 Å
1L9U THERMUS AQUATICUS RNA POLYMERASE HOLOENZYME AT 4 A RESOLUTION Deposited 2002-03-26 Different oligomeric state Different experimental conditions Different structure-quality metrics Assembly 2 Protein heterocomplex Heteromer；Protein × 6 PDB declaration: hexameric
Chain M 1–1524（1524 aa）
Not recorded MG MAGNESIUM ION × 1 ZN ZINC ION × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8；298 K；HEPES, sodium formate, pH 8, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Resolution 4.00 Å
1YNJ Taq RNA polymerase-Sorangicin complex Deposited 2005-01-24 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 6 PDB declaration: hexameric
Chain D 1–1524（1524 aa）
Chain J 1–1524（1524 aa）
Not recorded SRN SORANGICIN A × 1 ZN ZINC ION × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8；295 K；Tris, ammonium formate, magnesium formate, pH 8, VAPOR DIFFUSION, HANGING DROP, temperature 295K
Resolution 3.20 Å R-free 0.346
1YNN Taq RNA polymerase-rifampicin complex Deposited 2005-01-24 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 6 PDB declaration: hexameric
Chain D 1–1524（1524 aa）
Chain J 1–1524（1524 aa）
Not recorded RFP RIFAMPICIN × 1 ZN ZINC ION × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8；295 K；Tris, magnesium sulfate, ammonium sulfate, pH 8, VAPOR DIFFUSION, HANGING DROP, temperature 295K
Resolution 3.30 Å R-free 0.331
2AUJ Structure of Thermus aquaticus RNA polymerase beta'-subunit insert Deposited 2005-08-27 Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric
Chain D 151–455（305 aa） Fragment：residues 151-455
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6.5；298 K；sodium cacodylate/magnesium acetate/polyethylene glycol 8000, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Resolution 2.70 Å R-free 0.279
2GHO Recombinant Thermus aquaticus RNA polymerase for Structural Studies Deposited 2006-03-27 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric
Chain D 1–158（158 aa）
Chain D 452–1524（1073 aa）
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6；295 K；0.05 M Na cacodylate 10 mM MgCl2 1.0 M Li2SO4, pH 6.0, VAPOR DIFFUSION, HANGING DROP, temperature 295K
Resolution 5.00 Å R-free 0.337
4XLN Crystal structure of T. aquaticus transcription initiation complex containing bubble promoter and RNA Deposited 2015-01-13 Different oligomeric state Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 6 PDB declaration: nonameric
Chain D 1–1524（1524 aa）
Not recorded ZN ZINC ION × 2 MG MAGNESIUM ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8；293 K；ammonium sulfate, magnesium chloride, Tris-HCl
Resolution 4.00 Å R-free 0.315
4XLN Crystal structure of T. aquaticus transcription initiation complex containing bubble promoter and RNA Deposited 2015-01-13 Different oligomeric state Different experimental conditions Different structure-quality metrics Assembly 2 Other combination Heteromer；Protein × 6 PDB declaration: nonameric
Chain J 1–1524（1524 aa）
Not recorded ZN ZINC ION × 2 MG MAGNESIUM ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8；293 K；ammonium sulfate, magnesium chloride, Tris-HCl
Resolution 4.00 Å R-free 0.315
4XLP Crystal structure of T.aquaticus transcription initiation complex containing upstream fork promoter Deposited 2015-01-13 Different experimental conditions Different structure-quality metrics Assembly 1 Protein–DNA Heteromer；Protein × 6 PDB declaration: octameric
Chain D 1–1524（1524 aa）
Not recorded ZN ZINC ION × 2 MG MAGNESIUM ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8；293 K；ammonium sulfate, magnesium chloride, Tris-HCl
Resolution 4.00 Å R-free 0.297
4XLP Crystal structure of T.aquaticus transcription initiation complex containing upstream fork promoter Deposited 2015-01-13 Different experimental conditions Different structure-quality metrics Assembly 2 Protein–DNA Heteromer；Protein × 6 PDB declaration: octameric
Chain J 1–1524（1524 aa）
Not recorded ZN ZINC ION × 2 MG MAGNESIUM ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8；293 K；ammonium sulfate, magnesium chloride, Tris-HCl
Resolution 4.00 Å R-free 0.297
4XLQ Crystal structure of T.aquaticus transcription initiation complex containing upstream fork (-11 base-paired) promoter Deposited 2015-01-13 Different experimental conditions Different structure-quality metrics Assembly 1 Protein–DNA Heteromer；Protein × 6 PDB declaration: octameric
Chain D 1–1524（1524 aa）
Not recorded ZN ZINC ION × 2 MG MAGNESIUM ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8；293 K；ammonium sulfate, magnesium chloride, Tris-HCl
Resolution 4.60 Å R-free 0.281
4XLQ Crystal structure of T.aquaticus transcription initiation complex containing upstream fork (-11 base-paired) promoter Deposited 2015-01-13 Different experimental conditions Different structure-quality metrics Assembly 2 Protein–DNA Heteromer；Protein × 6 PDB declaration: octameric
Chain J 1–1524（1524 aa）
Not recorded ZN ZINC ION × 2 MG MAGNESIUM ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8；293 K；ammonium sulfate, magnesium chloride, Tris-HCl
Resolution 4.60 Å R-free 0.281
4XLR Crystal structure of T.aquaticus transcription initiation complex with CarD containing bubble promoter and RNA Deposited 2015-01-13 Different oligomeric state Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 7 PDB declaration: decameric
Chain D 1–1524（1524 aa）
Not recorded ZN ZINC ION × 2 MG MAGNESIUM ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8；293 K；ammonium sulfate, magnesium chloride, Tris-HCl
Resolution 4.30 Å R-free 0.310
4XLR Crystal structure of T.aquaticus transcription initiation complex with CarD containing bubble promoter and RNA Deposited 2015-01-13 Different oligomeric state Different experimental conditions Different structure-quality metrics Assembly 2 Other combination Heteromer；Protein × 7 PDB declaration: decameric
Chain J 1–1524（1524 aa）
Not recorded ZN ZINC ION × 2 MG MAGNESIUM ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8；293 K；ammonium sulfate, magnesium chloride, Tris-HCl
Resolution 4.30 Å R-free 0.310
4XLS Crystal structure of T. aquaticus transcription initiation complex with CarD containing upstream fork promoter. Deposited 2015-01-13 Different oligomeric state Different experimental conditions Different structure-quality metrics Assembly 1 Protein–DNA Heteromer；Protein × 7 PDB declaration: nonameric
Chain D 1–1524（1524 aa）
Not recorded ZN ZINC ION × 2 MG MAGNESIUM ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8；293 K；ammonium sulfate, magnesium chloride, Tris-HCl
Resolution 4.01 Å R-free 0.272
4XLS Crystal structure of T. aquaticus transcription initiation complex with CarD containing upstream fork promoter. Deposited 2015-01-13 Different oligomeric state Different experimental conditions Different structure-quality metrics Assembly 2 Protein–DNA Heteromer；Protein × 7 PDB declaration: nonameric
Chain J 1–1524（1524 aa）
Not recorded ZN ZINC ION × 2 MG MAGNESIUM ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8；293 K；ammonium sulfate, magnesium chloride, Tris-HCl
Resolution 4.01 Å R-free 0.272
4XLS Crystal structure of T. aquaticus transcription initiation complex with CarD containing upstream fork promoter. Deposited 2015-01-13 Different experimental conditions Different structure-quality metrics Assembly 3 Protein–DNA Heteromer；Protein × 6 PDB declaration: octameric
Chain D 1–1524（1524 aa）
Not recorded ZN ZINC ION × 2 MG MAGNESIUM ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8；293 K；ammonium sulfate, magnesium chloride, Tris-HCl
Resolution 4.01 Å R-free 0.272
4XLS Crystal structure of T. aquaticus transcription initiation complex with CarD containing upstream fork promoter. Deposited 2015-01-13 Different experimental conditions Different structure-quality metrics Assembly 4 Protein–DNA Heteromer；Protein × 6 PDB declaration: octameric
Chain J 1–1524（1524 aa）
Not recorded ZN ZINC ION × 2 MG MAGNESIUM ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8；293 K；ammonium sulfate, magnesium chloride, Tris-HCl
Resolution 4.01 Å R-free 0.272
5TJG Thermus aquaticus delta1.1-sigmaA holoenzyme/downstream-fork promoter complex with an open clamp Deposited 2016-10-04 Different oligomeric state Different experimental conditions Different structure-quality metrics Assembly 1 Protein–DNA Heteromer；Protein × 6 PDB declaration: heptameric
Chain D 1–1524（1524 aa）
Not recorded ZN ZINC ION × 2 MG MAGNESIUM ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6.5；295 K；0.1 M MES, pH 6.5, 50 mM MgCl2, 5-8% (w/v) polyethylene glycol, 10% (v/v) isopropanol
Resolution 2.60 Å R-free 0.262

13 other PDB entries and 21 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name RPOC_THEAQ
Isoform —
PDB entities 5
Chains and sequence ranges Author chain D； PDBConstruct 1–1524； UniProt 1–1524

RNA POLYMERASE, OMEGA SUBUNIT

OrganismNot specified

UniProt Q9EVV4

State in the Current Structure

Assembly Oligomeric State Construct Mutations and Modifications Ligands, Ions and Associated Components Method and Experimental Conditions Structure Quality
1 Protein–DNA Heteromer Protein × 6 DNA 2 PDB declaration: octameric（8） Consistent with all polymer counts Chain E； UniProt 0–98 Not recorded nontemplate DNA strand × 1 template DNA strand × 1 RNA POLYMERASE, ALPHA SUBUNIT × 2 （Q9KWU8） RNA POLYMERASE, BETA SUBUNIT × 1 （Q9KWU7） RNA POLYMERASE, BETA-PRIME SUBUNIT × 1 （Q9KWU6） SIGMA FACTOR SIGA × 1 （Q9EZJ8） MG MAGNESIUM ION × 1 ZN ZINC ION × 2 X-RAY DIFFRACTION X-ray crystallization conditions：VAPOR DIFFUSION, HANGING DROP；pH 8；277 K；ammonium sulfate, Tris, Magnesium chloride, pH 8, VAPOR DIFFUSION, HANGING DROP, temperature 277K Resolution 6.50 Å

Other States of the Same Protein in the Database

Each row is a biological assembly of the same UniProt protein in another PDB entry. The “Difference from current entry” column identifies evidence-level differences; no tag means the currently parsed fields agree.

Other PDB Difference from Current Entry 1L9Z Assembly / Oligomeric State Construct Mutations and Modifications Ligands, Ions and Non-polymers Method and Experimental Conditions Structure Quality
1HQM CRYSTAL STRUCTURE OF THERMUS AQUATICUS CORE RNA POLYMERASE-INCLUDES COMPLETE STRUCTURE WITH SIDE-CHAINS (EXCEPT FOR DISORDERED REGIONS)-FURTHER REFINED FROM ORIGINAL DEPOSITION-CONTAINS ADDITIONAL SEQUENCE INFORMATION Deposited 2000-12-18 Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 5 PDB declaration: pentameric
Chain E 1–99（99 aa）
Not recorded MG MAGNESIUM ION × 1 ZN ZINC ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8；298 K；ammonium sulfate, magnesium chloride, Tris-HCl, pH 8.0, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Resolution 3.30 Å R-free 0.360
1I6V THERMUS AQUATICUS CORE RNA POLYMERASE-RIFAMPICIN COMPLEX Deposited 2001-03-05 Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 5 PDB declaration: pentameric
Chain E 1–99（99 aa） Fragment：OMEGA SUBUNIT
Not recorded RFP RIFAMPICIN × 1 MG MAGNESIUM ION × 1 ZN ZINC ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8；298 K；Tris-HCl, Ammonium Sulfate, Magensium Chloride, pH 8, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Resolution 3.30 Å R-free 0.359
1L9U THERMUS AQUATICUS RNA POLYMERASE HOLOENZYME AT 4 A RESOLUTION Deposited 2002-03-26 Different oligomeric state Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 6 PDB declaration: hexameric
Chain E 0–98（99 aa）
Not recorded MG MAGNESIUM ION × 1 ZN ZINC ION × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8；298 K；HEPES, sodium formate, pH 8, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Resolution 4.00 Å
1L9U THERMUS AQUATICUS RNA POLYMERASE HOLOENZYME AT 4 A RESOLUTION Deposited 2002-03-26 Different oligomeric state Different experimental conditions Different structure-quality metrics Assembly 2 Protein heterocomplex Heteromer；Protein × 6 PDB declaration: hexameric
Chain N 0–98（99 aa）
Not recorded MG MAGNESIUM ION × 1 ZN ZINC ION × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8；298 K；HEPES, sodium formate, pH 8, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Resolution 4.00 Å
1YNJ Taq RNA polymerase-Sorangicin complex Deposited 2005-01-24 Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 6 PDB declaration: hexameric
Chain K 0–98（99 aa）
Not recorded SRN SORANGICIN A × 1 ZN ZINC ION × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8；295 K；Tris, ammonium formate, magnesium formate, pH 8, VAPOR DIFFUSION, HANGING DROP, temperature 295K
Resolution 3.20 Å R-free 0.346
1YNN Taq RNA polymerase-rifampicin complex Deposited 2005-01-24 Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 6 PDB declaration: hexameric
Chain K 0–98（99 aa）
Not recorded RFP RIFAMPICIN × 1 ZN ZINC ION × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8；295 K；Tris, magnesium sulfate, ammonium sulfate, pH 8, VAPOR DIFFUSION, HANGING DROP, temperature 295K
Resolution 3.30 Å R-free 0.331
4XLN Crystal structure of T. aquaticus transcription initiation complex containing bubble promoter and RNA Deposited 2015-01-13 Different construct Different oligomeric state Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 6 PDB declaration: nonameric
Chain E 1–99（99 aa）
Not recorded ZN ZINC ION × 2 MG MAGNESIUM ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8；293 K；ammonium sulfate, magnesium chloride, Tris-HCl
Resolution 4.00 Å R-free 0.315
4XLN Crystal structure of T. aquaticus transcription initiation complex containing bubble promoter and RNA Deposited 2015-01-13 Different construct Different oligomeric state Different experimental conditions Different structure-quality metrics Assembly 2 Other combination Heteromer；Protein × 6 PDB declaration: nonameric
Chain K 1–99（99 aa）
Not recorded ZN ZINC ION × 2 MG MAGNESIUM ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8；293 K；ammonium sulfate, magnesium chloride, Tris-HCl
Resolution 4.00 Å R-free 0.315
4XLP Crystal structure of T.aquaticus transcription initiation complex containing upstream fork promoter Deposited 2015-01-13 Different construct Different experimental conditions Different structure-quality metrics Assembly 1 Protein–DNA Heteromer；Protein × 6 PDB declaration: octameric
Chain E 1–99（99 aa）
Not recorded ZN ZINC ION × 2 MG MAGNESIUM ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8；293 K；ammonium sulfate, magnesium chloride, Tris-HCl
Resolution 4.00 Å R-free 0.297
4XLP Crystal structure of T.aquaticus transcription initiation complex containing upstream fork promoter Deposited 2015-01-13 Different construct Different experimental conditions Different structure-quality metrics Assembly 2 Protein–DNA Heteromer；Protein × 6 PDB declaration: octameric
Chain K 1–99（99 aa）
Not recorded ZN ZINC ION × 2 MG MAGNESIUM ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8；293 K；ammonium sulfate, magnesium chloride, Tris-HCl
Resolution 4.00 Å R-free 0.297
4XLQ Crystal structure of T.aquaticus transcription initiation complex containing upstream fork (-11 base-paired) promoter Deposited 2015-01-13 Different construct Different experimental conditions Different structure-quality metrics Assembly 1 Protein–DNA Heteromer；Protein × 6 PDB declaration: octameric
Chain E 1–99（99 aa）
Not recorded ZN ZINC ION × 2 MG MAGNESIUM ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8；293 K；ammonium sulfate, magnesium chloride, Tris-HCl
Resolution 4.60 Å R-free 0.281
4XLQ Crystal structure of T.aquaticus transcription initiation complex containing upstream fork (-11 base-paired) promoter Deposited 2015-01-13 Different construct Different experimental conditions Different structure-quality metrics Assembly 2 Protein–DNA Heteromer；Protein × 6 PDB declaration: octameric
Chain K 1–99（99 aa）
Not recorded ZN ZINC ION × 2 MG MAGNESIUM ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8；293 K；ammonium sulfate, magnesium chloride, Tris-HCl
Resolution 4.60 Å R-free 0.281
4XLR Crystal structure of T.aquaticus transcription initiation complex with CarD containing bubble promoter and RNA Deposited 2015-01-13 Different construct Different oligomeric state Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 7 PDB declaration: decameric
Chain E 1–99（99 aa）
Not recorded ZN ZINC ION × 2 MG MAGNESIUM ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8；293 K；ammonium sulfate, magnesium chloride, Tris-HCl
Resolution 4.30 Å R-free 0.310
4XLR Crystal structure of T.aquaticus transcription initiation complex with CarD containing bubble promoter and RNA Deposited 2015-01-13 Different construct Different oligomeric state Different experimental conditions Different structure-quality metrics Assembly 2 Other combination Heteromer；Protein × 7 PDB declaration: decameric
Chain K 1–99（99 aa）
Not recorded ZN ZINC ION × 2 MG MAGNESIUM ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8；293 K；ammonium sulfate, magnesium chloride, Tris-HCl
Resolution 4.30 Å R-free 0.310
4XLS Crystal structure of T. aquaticus transcription initiation complex with CarD containing upstream fork promoter. Deposited 2015-01-13 Different construct Different oligomeric state Different experimental conditions Different structure-quality metrics Assembly 1 Protein–DNA Heteromer；Protein × 7 PDB declaration: nonameric
Chain E 1–99（99 aa）
Not recorded ZN ZINC ION × 2 MG MAGNESIUM ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8；293 K；ammonium sulfate, magnesium chloride, Tris-HCl
Resolution 4.01 Å R-free 0.272
4XLS Crystal structure of T. aquaticus transcription initiation complex with CarD containing upstream fork promoter. Deposited 2015-01-13 Different construct Different oligomeric state Different experimental conditions Different structure-quality metrics Assembly 2 Protein–DNA Heteromer；Protein × 7 PDB declaration: nonameric
Chain K 1–99（99 aa）
Not recorded ZN ZINC ION × 2 MG MAGNESIUM ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8；293 K；ammonium sulfate, magnesium chloride, Tris-HCl
Resolution 4.01 Å R-free 0.272
4XLS Crystal structure of T. aquaticus transcription initiation complex with CarD containing upstream fork promoter. Deposited 2015-01-13 Different construct Different experimental conditions Different structure-quality metrics Assembly 3 Protein–DNA Heteromer；Protein × 6 PDB declaration: octameric
Chain E 1–99（99 aa）
Not recorded ZN ZINC ION × 2 MG MAGNESIUM ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8；293 K；ammonium sulfate, magnesium chloride, Tris-HCl
Resolution 4.01 Å R-free 0.272
4XLS Crystal structure of T. aquaticus transcription initiation complex with CarD containing upstream fork promoter. Deposited 2015-01-13 Different construct Different experimental conditions Different structure-quality metrics Assembly 4 Protein–DNA Heteromer；Protein × 6 PDB declaration: octameric
Chain K 1–99（99 aa）
Not recorded ZN ZINC ION × 2 MG MAGNESIUM ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8；293 K；ammonium sulfate, magnesium chloride, Tris-HCl
Resolution 4.01 Å R-free 0.272
5TJG Thermus aquaticus delta1.1-sigmaA holoenzyme/downstream-fork promoter complex with an open clamp Deposited 2016-10-04 Different construct Different oligomeric state Different experimental conditions Different structure-quality metrics Assembly 1 Protein–DNA Heteromer；Protein × 6 PDB declaration: heptameric
Chain E 1–99（99 aa）
Not recorded ZN ZINC ION × 2 MG MAGNESIUM ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6.5；295 K；0.1 M MES, pH 6.5, 50 mM MgCl2, 5-8% (w/v) polyethylene glycol, 10% (v/v) isopropanol
Resolution 2.60 Å R-free 0.262

11 other PDB entries and 19 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name RPOZ_THEAQ
Isoform —
PDB entities 6
Chains and sequence ranges Author chain E； PDBConstruct 1–99； UniProt 0–98

SIGMA FACTOR SIGA

Thermus aquaticus

UniProt Q9EZJ8

State in the Current Structure

Assembly Oligomeric State Construct Mutations and Modifications Ligands, Ions and Associated Components Method and Experimental Conditions Structure Quality
1 Protein–DNA Heteromer Protein × 6 DNA 2 PDB declaration: octameric（8） Consistent with all polymer counts Chain H； UniProt 1–438 Not recorded nontemplate DNA strand × 1 template DNA strand × 1 RNA POLYMERASE, ALPHA SUBUNIT × 2 （Q9KWU8） RNA POLYMERASE, BETA SUBUNIT × 1 （Q9KWU7） RNA POLYMERASE, BETA-PRIME SUBUNIT × 1 （Q9KWU6） RNA POLYMERASE, OMEGA SUBUNIT × 1 （Q9EVV4） MG MAGNESIUM ION × 1 ZN ZINC ION × 2 X-RAY DIFFRACTION X-ray crystallization conditions：VAPOR DIFFUSION, HANGING DROP；pH 8；277 K；ammonium sulfate, Tris, Magnesium chloride, pH 8, VAPOR DIFFUSION, HANGING DROP, temperature 277K Resolution 6.50 Å

Other States of the Same Protein in the Database

Each row is a biological assembly of the same UniProt protein in another PDB entry. The “Difference from current entry” column identifies evidence-level differences; no tag means the currently parsed fields agree.

Other PDB Difference from Current Entry 1L9Z Assembly / Oligomeric State Construct Mutations and Modifications Ligands, Ions and Non-polymers Method and Experimental Conditions Structure Quality
1KU2 Crystal Structure of Thermus aquaticus RNA Polymerase Sigma Subunit Fragment Containing Regions 1.2 to 3.1 Deposited 2002-01-21 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein homooligomer Homooligomer；Protein × 2 PDB declaration: dimeric
Chain A 92–332（241 aa） Fragment：residues 92-332
Chain B 92–332（241 aa） Fragment：residues 92-332
Not recorded SO4 SULFATE ION × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7；298 K；MOPS, ammonium sulfate, magnesium chloride, pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Resolution 2.90 Å R-free 0.271
1KU3 Crystal Structure of Thermus aquaticus RNA Polymerase Sigma Subunit Fragment, Region 4 Deposited 2002-01-21 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric
Chain A 366–438（73 aa） Fragment：region 4 (residues 366-438)
Mutation：L386M No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6；298 K；MES, ammonium sulfate, magnesium chloride, pH 6, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Resolution 1.80 Å R-free 0.252
1KU7 Crystal Structure of Thermus aquatics RNA Polymerase SigmaA Subunit Region 4 Bound to-35 Element DNA Deposited 2002-01-21 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein–DNA Homooligomer；Protein × 2 PDB declaration: tetrameric
Chain A 366–438（73 aa） Fragment：region 4 (residues 366-438)
Chain D 366–438（73 aa） Fragment：region 4 (residues 366-438)
Mutation：L386M Mutation：L386M No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 5.5；298 K；MES, PEG 4000, magnesium acetate, pH 5.5, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Resolution 2.40 Å R-free 0.293
1L9U THERMUS AQUATICUS RNA POLYMERASE HOLOENZYME AT 4 A RESOLUTION Deposited 2002-03-26 Different construct Different oligomeric state Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 6 PDB declaration: hexameric
Chain H 92–438（347 aa） Fragment：RESIDUES 92-438
Not recorded MG MAGNESIUM ION × 1 ZN ZINC ION × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8；298 K；HEPES, sodium formate, pH 8, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Resolution 4.00 Å
1L9U THERMUS AQUATICUS RNA POLYMERASE HOLOENZYME AT 4 A RESOLUTION Deposited 2002-03-26 Different construct Different oligomeric state Different experimental conditions Different structure-quality metrics Assembly 2 Protein heterocomplex Heteromer；Protein × 6 PDB declaration: hexameric
Chain Q 92–438（347 aa） Fragment：RESIDUES 92-438
Not recorded MG MAGNESIUM ION × 1 ZN ZINC ION × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8；298 K；HEPES, sodium formate, pH 8, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Resolution 4.00 Å
1RIO Structure of bacteriophage lambda cI-NTD in complex with sigma-region4 of Thermus aquaticus bound to DNA Deposited 2003-11-17 Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein–DNA Heteromer；Protein × 3 PDB declaration: pentameric
Chain H 366–438（73 aa） Fragment：Sigma region 4
Not recorded CA CALCIUM ION × 1 MPD (4S)-2-METHYL-2,4-PENTANEDIOL × 1 X-RAY DIFFRACTION
X-ray crystallization conditions pH 4.6；295 K；MPD, Sodium Acetate, calcium chloride, pH 4.6, VAPOR DIFFUSION, HANGING DROP, temperature 295K, pH 4.60
Resolution 2.30 Å R-free 0.254
3LES 2F5 Epitope scaffold ES2 Deposited 2010-01-15 Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric
Chain A 93–271（179 aa） Fragment：UNP RESIDUES 93-271
Not recorded SO4 SULFATE ION × 3 X-RAY DIFFRACTION
X-ray crystallization conditions 23% PEG 4000, 0.12 M (NH4)2SO4, 0.02 M ATP, VAPOR DIFFUSION, TEMPERATURE 293K
Resolution 2.77 Å R-free 0.260
3LES 2F5 Epitope scaffold ES2 Deposited 2010-01-15 Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 2 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric
Chain B 93–271（179 aa） Fragment：UNP RESIDUES 93-271
Not recorded SO4 SULFATE ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions 23% PEG 4000, 0.12 M (NH4)2SO4, 0.02 M ATP, VAPOR DIFFUSION, TEMPERATURE 293K
Resolution 2.77 Å R-free 0.260
3LEV HIV-1 antibody 2F5 in complex with epitope scaffold ES2 Deposited 2010-01-15 Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 3 PDB declaration: trimeric
Chain A 93–271（179 aa） Fragment：UNP RESIDUES 93-271
Not recorded 1PE PENTAETHYLENE GLYCOL × 1 ATP ADENOSINE-5'-TRIPHOSPHATE × 1 GOL GLYCEROL × 1 X-RAY DIFFRACTION
X-ray crystallization conditions pH 5.5；16% PEG 400, 2.8% PEG 3350, 0.1 M CH3COONA PH 5.5, 0.02 M ATP, VAPOR DIFFUSION, TEMPERATURE 293K
Resolution 2.50 Å R-free 0.253
3LEV HIV-1 antibody 2F5 in complex with epitope scaffold ES2 Deposited 2010-01-15 Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 2 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric
Chain A 93–271（179 aa） Fragment：UNP RESIDUES 93-271
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions pH 5.5；16% PEG 400, 2.8% PEG 3350, 0.1 M CH3COONA PH 5.5, 0.02 M ATP, VAPOR DIFFUSION, TEMPERATURE 293K
Resolution 2.50 Å R-free 0.253
3N97 RNA polymerase alpha C-terminal domain (E. coli) and sigma region 4 (T. aq. mutant) bound to (UP,-35 element) DNA Deposited 2010-05-28 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein–DNA Heteromer；Protein × 4 PDB declaration: hexameric
Chain A 366–438（73 aa） Fragment：sigma subunit region 4, residues 366-438
Chain D 366–438（73 aa） Fragment：sigma subunit region 4, residues 366-438
Mutation：L386M and 424-429 KYHESR replaced with RHPSR Mutation：L386M and 424-429 KYHESR replaced with RHPSR ACT ACETATE ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 5.6；289.15 K；28% (w/v) PEG4000, 0.2 M ammonium acetate, 0.01 M sarcosine, 0.1 M sodium citrate, pH 5.6, VAPOR DIFFUSION, HANGING DROP, temperature 289.15K
Resolution 3.25 Å R-free 0.295
3UGO Crystal structure of RNA-polymerase sigma subunit domain 2 complexed with -10 promoter element ssDNA oligo (TACAAT) Deposited 2011-11-02 Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein–DNA Monomer；Protein × 1 PDB declaration: dimeric
Chain A 92–332（241 aa） Fragment：domain 2 (UNP residues 92-332)
Not recorded K POTASSIUM ION × 3 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8.5；295 K；5% PEG8000, 20% PEG300, 10% glycerol, 0.15% mellitic acid, 100 mM Tris, pH 8.5, VAPOR DIFFUSION, HANGING DROP, temperature 295K
Resolution 2.10 Å R-free 0.237
3UGP Crystal structure of RNA-polymerase sigma subunit domain 2 complexed with -10 promoter element ssDNA oligo (TATAAT) Deposited 2011-11-02 Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein–DNA Monomer；Protein × 1 PDB declaration: dimeric
Chain A 92–332（241 aa） Fragment：domain 2 (UNP residues 92-332)
Not recorded K POTASSIUM ION × 3 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8.5；295 K；5% PEG8000, 20% PEG300, 10% glycerol, 0.15% mellitic acid, 100 mM Tris, pH 8.5, VAPOR DIFFUSION, HANGING DROP, temperature 295K
Resolution 2.70 Å R-free 0.238
4KI2 Crystallographic analysis of an RNA-polymerase sigma-subunit fragment complexed with -10 promoter element ssDNA Deposited 2013-05-01 Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein–DNA Monomer；Protein × 1 PDB declaration: trimeric
Chain A 92–332（241 aa） Fragment：domains 2-3, (UNP residues 92-332)
Not recorded K POTASSIUM ION × 5 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8.5；295.15 K；100 mM Tris, pH 8.5, 5% w/v PEG8000, 20% w/v PEG300, 10% v/v glycerol, 0.15% w/v mellitic acid, VAPOR DIFFUSION, HANGING DROP, temperature 295.15K
Resolution 3.30 Å R-free 0.262
4KI2 Crystallographic analysis of an RNA-polymerase sigma-subunit fragment complexed with -10 promoter element ssDNA Deposited 2013-05-01 Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 2 Protein–DNA Monomer；Protein × 1 PDB declaration: trimeric
Chain B 92–332（241 aa） Fragment：domains 2-3, (UNP residues 92-332)
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8.5；295.15 K；100 mM Tris, pH 8.5, 5% w/v PEG8000, 20% w/v PEG300, 10% v/v glycerol, 0.15% w/v mellitic acid, VAPOR DIFFUSION, HANGING DROP, temperature 295.15K
Resolution 3.30 Å R-free 0.262
4XLN Crystal structure of T. aquaticus transcription initiation complex containing bubble promoter and RNA Deposited 2015-01-13 Different construct Different oligomeric state Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 6 PDB declaration: nonameric
Chain F 92–438（347 aa）
Not recorded ZN ZINC ION × 2 MG MAGNESIUM ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8；293 K；ammonium sulfate, magnesium chloride, Tris-HCl
Resolution 4.00 Å R-free 0.315
4XLN Crystal structure of T. aquaticus transcription initiation complex containing bubble promoter and RNA Deposited 2015-01-13 Different construct Different oligomeric state Different experimental conditions Different structure-quality metrics Assembly 2 Other combination Heteromer；Protein × 6 PDB declaration: nonameric
Chain L 92–438（347 aa）
Not recorded ZN ZINC ION × 2 MG MAGNESIUM ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8；293 K；ammonium sulfate, magnesium chloride, Tris-HCl
Resolution 4.00 Å R-free 0.315
4XLP Crystal structure of T.aquaticus transcription initiation complex containing upstream fork promoter Deposited 2015-01-13 Different construct Different experimental conditions Different structure-quality metrics Assembly 1 Protein–DNA Heteromer；Protein × 6 PDB declaration: octameric
Chain F 92–438（347 aa） Fragment：unp residues 92-438
Not recorded ZN ZINC ION × 2 MG MAGNESIUM ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8；293 K；ammonium sulfate, magnesium chloride, Tris-HCl
Resolution 4.00 Å R-free 0.297
4XLP Crystal structure of T.aquaticus transcription initiation complex containing upstream fork promoter Deposited 2015-01-13 Different construct Different experimental conditions Different structure-quality metrics Assembly 2 Protein–DNA Heteromer；Protein × 6 PDB declaration: octameric
Chain L 92–438（347 aa） Fragment：unp residues 92-438
Not recorded ZN ZINC ION × 2 MG MAGNESIUM ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8；293 K；ammonium sulfate, magnesium chloride, Tris-HCl
Resolution 4.00 Å R-free 0.297
4XLQ Crystal structure of T.aquaticus transcription initiation complex containing upstream fork (-11 base-paired) promoter Deposited 2015-01-13 Different construct Different experimental conditions Different structure-quality metrics Assembly 1 Protein–DNA Heteromer；Protein × 6 PDB declaration: octameric
Chain F 92–438（347 aa） Fragment：unp residues 92-438
Not recorded ZN ZINC ION × 2 MG MAGNESIUM ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8；293 K；ammonium sulfate, magnesium chloride, Tris-HCl
Resolution 4.60 Å R-free 0.281
4XLQ Crystal structure of T.aquaticus transcription initiation complex containing upstream fork (-11 base-paired) promoter Deposited 2015-01-13 Different construct Different experimental conditions Different structure-quality metrics Assembly 2 Protein–DNA Heteromer；Protein × 6 PDB declaration: octameric
Chain L 92–438（347 aa） Fragment：unp residues 92-438
Not recorded ZN ZINC ION × 2 MG MAGNESIUM ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8；293 K；ammonium sulfate, magnesium chloride, Tris-HCl
Resolution 4.60 Å R-free 0.281
4XLR Crystal structure of T.aquaticus transcription initiation complex with CarD containing bubble promoter and RNA Deposited 2015-01-13 Different construct Different oligomeric state Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 7 PDB declaration: decameric
Chain F 92–438（347 aa） Fragment：unp residues 92-438
Not recorded ZN ZINC ION × 2 MG MAGNESIUM ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8；293 K；ammonium sulfate, magnesium chloride, Tris-HCl
Resolution 4.30 Å R-free 0.310
4XLR Crystal structure of T.aquaticus transcription initiation complex with CarD containing bubble promoter and RNA Deposited 2015-01-13 Different construct Different oligomeric state Different experimental conditions Different structure-quality metrics Assembly 2 Other combination Heteromer；Protein × 7 PDB declaration: decameric
Chain L 92–438（347 aa） Fragment：unp residues 92-438
Not recorded ZN ZINC ION × 2 MG MAGNESIUM ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8；293 K；ammonium sulfate, magnesium chloride, Tris-HCl
Resolution 4.30 Å R-free 0.310
4XLS Crystal structure of T. aquaticus transcription initiation complex with CarD containing upstream fork promoter. Deposited 2015-01-13 Different construct Different oligomeric state Different experimental conditions Different structure-quality metrics Assembly 1 Protein–DNA Heteromer；Protein × 7 PDB declaration: nonameric
Chain F 92–438（347 aa） Fragment：92-438
Not recorded ZN ZINC ION × 2 MG MAGNESIUM ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8；293 K；ammonium sulfate, magnesium chloride, Tris-HCl
Resolution 4.01 Å R-free 0.272
4XLS Crystal structure of T. aquaticus transcription initiation complex with CarD containing upstream fork promoter. Deposited 2015-01-13 Different construct Different oligomeric state Different experimental conditions Different structure-quality metrics Assembly 2 Protein–DNA Heteromer；Protein × 7 PDB declaration: nonameric
Chain L 92–438（347 aa） Fragment：92-438
Not recorded ZN ZINC ION × 2 MG MAGNESIUM ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8；293 K；ammonium sulfate, magnesium chloride, Tris-HCl
Resolution 4.01 Å R-free 0.272
4XLS Crystal structure of T. aquaticus transcription initiation complex with CarD containing upstream fork promoter. Deposited 2015-01-13 Different construct Different experimental conditions Different structure-quality metrics Assembly 3 Protein–DNA Heteromer；Protein × 6 PDB declaration: octameric
Chain F 92–438（347 aa） Fragment：92-438
Not recorded ZN ZINC ION × 2 MG MAGNESIUM ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8；293 K；ammonium sulfate, magnesium chloride, Tris-HCl
Resolution 4.01 Å R-free 0.272
4XLS Crystal structure of T. aquaticus transcription initiation complex with CarD containing upstream fork promoter. Deposited 2015-01-13 Different construct Different experimental conditions Different structure-quality metrics Assembly 4 Protein–DNA Heteromer；Protein × 6 PDB declaration: octameric
Chain L 92–438（347 aa） Fragment：92-438
Not recorded ZN ZINC ION × 2 MG MAGNESIUM ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8；293 K；ammonium sulfate, magnesium chloride, Tris-HCl
Resolution 4.01 Å R-free 0.272
5TJG Thermus aquaticus delta1.1-sigmaA holoenzyme/downstream-fork promoter complex with an open clamp Deposited 2016-10-04 Different construct Different oligomeric state Different experimental conditions Different structure-quality metrics Assembly 1 Protein–DNA Heteromer；Protein × 6 PDB declaration: heptameric
Chain F 92–438（347 aa）
Not recorded ZN ZINC ION × 2 MG MAGNESIUM ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6.5；295 K；0.1 M MES, pH 6.5, 50 mM MgCl2, 5-8% (w/v) polyethylene glycol, 10% (v/v) isopropanol
Resolution 2.60 Å R-free 0.262

17 other PDB entries and 28 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name Q9EZJ8_THEAQ
Isoform —
PDB entities 7
Chains and sequence ranges Author chain H； PDBConstruct 1–438； UniProt 1–438

The page prioritizes protein identity, the current assembly, associated components, oligomeric state and cross-PDB links. Chain mapping and sequence ranges are retained as data evidence. Internal IDs, import timestamps and assembly operation expressions are maintenance fields and are not shown here.

SAXS scattering curve SAXS Profile

SAXS profile for 1l9z

P(r) Distance Distribution P(r) Distribution

P(r) distribution for 1l9z
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2. Structure Basics 2. Structure Basics

Entry ID entry_id1l9z
Deposition date deposition_date2002-03-27
Structure title titleThermus aquaticus RNA Polymerase Holoenzyme/Fork-Junction Promoter DNA Complex at 6.5 A Resolution
Keywords keywordshelix-turn-helix, coiled-coil, TRANSCRIPTION-DNA COMPLEX; TRANSCRIPTION/DNA
Experimental Method methodX-RAY DIFFRACTION
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3. SAXS Parameters (CRYSOL theoretical calculation) 3. SAXS Parameters (CRYSOL)

Radius of gyration Rg (Guinier) rg_guinier49.23 Å
Radius of gyration Rg (electron density) rg_electron48.42 Å
Forward intensity I(0) i0451941000.00
Molecular weight molecular_weight136830.0 kDa
Excluded volume excluded_volume155050 ų
Envelope volume envelope_volume498950 ų
Hydration-shell volume shell_volume88538 ų
Envelope diameter envelope_diameter175.0 Å
Shell Rg shell_rg51.68 Å
Envelope Rg envelope_rg45.70 Å
Shape Rg shape_rg48.10 Å
Total Rg total_rg49.39 Å
Total atoms total_atoms10078
Residues n_residues3186
Spherical-harmonic order n_harmonics20
q range q_range— – 0.5000 Å−1
Data points n_points101
Shell type shell_typedirectional
Solvent electron density solvent_density0.3340 e/ų
Shell contrast contrast_shell0.0300 e/ų
CRYSOL version crysol_version4.1.3
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4. P(r) Distance Distribution (GNOM inversion) 4. P(r) Analysis (GNOM)

Maximum dimension Dmax dmax163.5 Å
Rg (real space) rg_real49.01 Å
Rg uncertainty (real space) rg_real_error1.29 Å
I(0) (real space) i0_real4.5190e+08
I(0) uncertainty (real space) i0_real_error8.0220e+06
Rg (reciprocal space) rg_reciprocal49.23 Å
I(0) (reciprocal space) i0_reciprocal452100000.0000
Solution quality estimate total_estimate0.8685
Solution quality rating solution_quality GOOD a GOOD solution
P(r) peaks n_peaks2
Primary peak position r_peak_primary61.3 Å
Skewness Skewness skewness0.270
Kurtosis Kurtosis kurtosis-0.231
Angular range angular_range— – 0.1600 Å−1
Current regularization parameter α current_alpha0.0000
Highest regularization parameter α highest_alpha223900000.0000
Real-space data points n_real_points33
GNOM version gnom_version4.1.3
Quality Criteria quality_criteria AN1: 0.000; Oscil: 0.814; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.982; Smooth: 0.863
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5. Crystallography and Experiment 5. Crystallography & Experiment

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6. Entities and Polymers Entities & Polymers (9)

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7. Fold Classification (SCOP + CATH) 6 domains

SCOP 2.08 (6 domains)

Domain ID domain_idd1l9za_
Class classi — Low resolution protein structures
Fold Fold foldi.8 — RNA polymerase
Superfamily Superfamily superfamilyi.8.1 — RNA polymerase
Family Family familyi.8.1.1 — RNA polymerase
Domain ID domain_idd1l9zb_
Class classi — Low resolution protein structures
Fold Fold foldi.8 — RNA polymerase
Superfamily Superfamily superfamilyi.8.1 — RNA polymerase
Family Family familyi.8.1.1 — RNA polymerase
Domain ID domain_idd1l9zc_
Class classi — Low resolution protein structures
Fold Fold foldi.8 — RNA polymerase
Superfamily Superfamily superfamilyi.8.1 — RNA polymerase
Family Family familyi.8.1.1 — RNA polymerase
Domain ID domain_idd1l9zd_
Class classi — Low resolution protein structures
Fold Fold foldi.8 — RNA polymerase
Superfamily Superfamily superfamilyi.8.1 — RNA polymerase
Family Family familyi.8.1.1 — RNA polymerase
Domain ID domain_idd1l9ze_
Class classi — Low resolution protein structures
Fold Fold foldi.8 — RNA polymerase
Superfamily Superfamily superfamilyi.8.1 — RNA polymerase
Family Family familyi.8.1.1 — RNA polymerase
Domain ID domain_idd1l9zh_
Class classi — Low resolution protein structures
Fold Fold foldi.8 — RNA polymerase
Superfamily Superfamily superfamilyi.8.1 — RNA polymerase
Family Family familyi.8.1.1 — RNA polymerase
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8. Citations (1)

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9. Files and Curves (10)