Biological Assembly 1  

 3D View: Structure | 1D-3D View | Electron Density | Validation Report

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 4-mer - A2B1C1 Local Symmetry: Cyclic - C2  (3D View)
Local Stoichiometry: Homo 2-mer - A2 

Local Symmetry: Cyclic - C2  (3D View)
Local Stoichiometry: Homo 2-mer - A2 

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 333.29 kDa 
• Atom Count: 11060 
• Modelled Residue Count: 2765 
• Deposited Residue Count: 2980 
• Unique protein chains: 3

2GHO

Recombinant Thermus aquaticus RNA polymerase for Structural Studies

• PDB DOI: 10.2210/pdb2GHO/pdb

• Classification: TRANSFERASE
• Organism(s): Thermus aquaticus
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2006-03-27 Released: 2006-05-23 
• Deposition Author(s): Lamour, V., Darst, S.A.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 5.00 Å
• R-Value Free: 0.337 
• R-Value Work: 0.336 

Literature

Recombinant Thermus aquaticus RNA Polymerase for Structural Studies.

Kuznedelov, K., Lamour, V., Patikoglou, G., Chlenov, M., Darst, S.A., Severinov, K.

(2006) J Mol Biol 359: 110-121

• PubMed: 16618493 
• DOI: 10.1016/j.jmb.2006.03.009
• Primary Citation of Related Structures:  
  2GHO


• PubMed Abstract: 
  

Advances in the structural biology of bacterial transcription have come from studies of RNA polymerases (RNAPs) from the thermophilic eubacteria Thermus aquaticus (Taq) and Thermus thermophilus (Tth). These structural studies have been limited by the fact that only endogenous Taq or Tth RNAP, laboriously purified from large quantities of Taq or Tth cell paste and offering few options for genetic modification, is suitable for structural studies. Recombinant systems for the preparation of Taq RNAP by co-overexpression and assembly in the heterologous host, Escherichia coli, have been described, but these did not yield enzyme suitable for crystallographic studies. Here we describe recombinant systems for the preparation of Taq RNAP harboring full or partial deletions of the Taq beta' non-conserved domain (NCD), yielding enzyme suitable for crystallographic studies. This opens the way for structural studies of genetically manipulated enzymes, allowing the preparation of more crystallizable enzymes and facilitating detailed structure/function analysis. Characterization of the Taqbeta'NCD deletion mutants generated in this study showed that the beta'NCD is important for the efficient binding of the sigma subunit, confirming previous hypotheses. Finally, preliminary structural analysis (at 4.1Angstroms resolution) of one of the recombinant mutants revealed a previously unobserved conformation of the beta-flap, further defining the range of conformations accessible to this flexible structural element.

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Organizational Affiliation: 

Department of Molecular Biology and Biochemistry, Rutgers University, Piscataway, NJ 08854, USA.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
DNA-directed RNA polymerase subunit alpha	A, B	314	Thermus aquaticus	Mutation(s): 0  Gene Names: rpoA EC: 2.7.7.6
UniProt
Find proteins for Q9KWU8 (Thermus aquaticus) Explore Q9KWU8  Go to UniProtKB:  Q9KWU8

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
DNA-directed RNA polymerase subunit beta	C	1119	Thermus aquaticus	Mutation(s): 0  Gene Names: rpoB EC: 2.7.7.6
UniProt
Find proteins for Q9KWU7 (Thermus aquaticus) Explore Q9KWU7  Go to UniProtKB:  Q9KWU7

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
DNA-directed RNA polymerase subunit beta',DNA-directed RNA polymerase subunit beta'	D	1233	Thermus aquaticus	Mutation(s): 0  Gene Names: rpoC EC: 2.7.7.6
UniProt
Find proteins for Q9KWU6 (Thermus aquaticus) Explore Q9KWU6  Go to UniProtKB:  Q9KWU6

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 5.00 Å
• R-Value Free: 0.337 
• R-Value Work: 0.336 
• Space Group: P 4₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 202.8	α = 90
b = 202.8	β = 90
c = 326.8	γ = 90

Software Package:

Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
CNS	refinement
PDB_EXTRACT	data extraction
CNS	phasing

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2006-03-27 
• Released Date: 2006-05-23 
Deposition Author(s): Lamour, V., Darst, S.A.

Revision History  

• Version 1.0: 2006-05-23
  Type: Initial release
  
• Version 1.1: 2008-05-01
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2017-06-28
  Changes: Database references, Source and taxonomy, Structure summary
• Version 1.4: 2017-10-18
  Changes: Refinement description