Biological Assembly 1  

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

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 8.97 kDa 
• Atom Count: 551 
• Modelled Residue Count: 67 
• Deposited Residue Count: 76 
• Unique protein chains: 1

2AHQ

Solution Structure of the C-terminal RpoN Domain of Sigma-54 from Aquifex aeolicus

• PDB DOI: 10.2210/pdb2AHQ/pdb
• BMRB: 6816

• Classification: TRANSCRIPTION
• Organism(s): Aquifex aeolicus
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2005-07-28 Released: 2005-10-11 
• Deposition Author(s): Doucleff, M., Malak, L.T., Pelton, J.G., Wemmer, D.E.

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Experimental Data Snapshot

• Method: SOLUTION NMR
• Conformers Calculated: 150 
• Conformers Submitted: 20 
• Selection Criteria: target function 

Literature

The C-terminal RpoN domain of sigma54 forms an unpredicted helix-turn-helix motif similar to domains of sigma70.

Doucleff, M., Malak, L.T., Pelton, J.G., Wemmer, D.E.

(2005) J Biol Chem 280: 41530-41536

• PubMed: 16210314 
• DOI: 10.1074/jbc.M509010200
• Primary Citation of Related Structures:  
  2AHQ


• PubMed Abstract: 
  

The "sigma" subunit of prokaryotic RNA polymerase allows gene-specific transcription initiation. Two sigma families have been identified, sigma70 and sigma54, which use distinct mechanisms to initiate transcription and share no detectable sequence homology. Although the sigma70-type factors have been well characterized structurally by x-ray crystallography, no high resolution structural information is available for the sigma54-type factors. Here we present the NMR-derived structure of the C-terminal domain of sigma54 from Aquifex aeolicus. This domain (Thr-323 to Gly-389), which contains the highly conserved RpoN box sequence, consists of a poorly structured N-terminal tail followed by a three-helix bundle, which is surprisingly similar to domains of the sigma70-type proteins. Residues of the RpoN box, which have previously been shown to be critical for DNA binding, form the second helix of an unpredicted helix-turn-helix motif. The homology of this structure with other DNA-binding proteins, combined with previous biochemical data, suggests how the C-terminal domain of sigma54 binds to DNA.

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Organizational Affiliation: 

Physical Biosciences Division, Lawrence Berkeley National Laboratory, Berkeley, California 94720, USA.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
RNA polymerase sigma factor RpoN	A	76	Aquifex aeolicus	Mutation(s): 0  Gene Names: rpoN
UniProt
Find proteins for O66858 (Aquifex aeolicus (strain VF5)) Explore O66858  Go to UniProtKB:  O66858

Experimental Data & Validation

Experimental Data

• Method: SOLUTION NMR
• Conformers Calculated: 150 
• Conformers Submitted: 20 
• Selection Criteria: target function 
• OLDERADO: 2AHQ Olderado

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2005-07-28 
• Released Date: 2005-10-11 
Deposition Author(s): Doucleff, M., Malak, L.T., Pelton, J.G., Wemmer, D.E.

Revision History  

• Version 1.0: 2005-10-11
  Type: Initial release
  
• Version 1.1: 2008-04-30
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2022-03-09
  Changes: Database references, Derived calculations