Crystal structure of E. coli regulator of ribonuclease activity A (RraA) bound to fragment of DEAD-box protein RhlB

Experimental Data Snapshot

  • Resolution: 2.80 Å
  • R-Value Free: 0.288 
  • R-Value Work: 0.221 
  • R-Value Observed: 0.224 

Starting Model: experimental
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This is version 1.4 of the entry. See complete history


Potential regulatory interactions of Escherichia coli RraA protein with DEAD-box helicases.

Pietras, Z.Hardwick, S.W.Swiezewski, S.Luisi, B.F.

(2013) J Biol Chem 288: 31919-31929

  • DOI: https://doi.org/10.1074/jbc.M113.502146
  • Primary Citation of Related Structures:  
    2YJT, 2YJV

  • PubMed Abstract: 

    Members of the DEAD-box family of RNA helicases contribute to virtually every aspect of RNA metabolism, in organisms from all domains of life. Many of these helicases are constituents of multicomponent assemblies, and their interactions with partner proteins within the complexes underpin their activities and biological function. In Escherichia coli the DEAD-box helicase RhlB is a component of the multienzyme RNA degradosome assembly, and its interaction with the core ribonuclease RNase E boosts the ATP-dependent activity of the helicase. Earlier studies have identified the regulator of ribonuclease activity A (RraA) as a potential interaction partner of both RNase E and RhlB. We present structural and biochemical evidence showing how RraA can bind to, and modulate the activity of RhlB and another E. coli DEAD-box enzyme, SrmB. Crystallographic structures are presented of RraA in complex with a portion of the natively unstructured C-terminal tail of RhlB at 2.8-Å resolution, and in complex with the C-terminal RecA-like domain of SrmB at 2.9 Å. The models suggest two distinct mechanisms by which RraA might modulate the activity of these and potentially other helicases.

  • Organizational Affiliation

    From the Department of Biochemistry, University of Cambridge, Tennis Court Road, Cambridge CB2 1GA, United Kingdom and.

Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
A, B, C, D, E
A, B, C, D, E, F, G, H, I, J, K, L
161Escherichia coli K-12Mutation(s): 0 
Find proteins for P0A8R0 (Escherichia coli (strain K12))
Explore P0A8R0 
Go to UniProtKB:  P0A8R0
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP0A8R0
Sequence Annotations
  • Reference Sequence

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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
M, N
9Escherichia coli K-12Mutation(s): 0 
Sequence Annotations
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Resolution: 2.80 Å
  • R-Value Free: 0.288 
  • R-Value Work: 0.221 
  • R-Value Observed: 0.224 
  • Space Group: C 1 2 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 259.63α = 90
b = 69.07β = 109.17
c = 123.3γ = 90
Software Package:
Software NamePurpose
MOSFLMdata reduction
SCALAdata scaling

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2012-06-06
    Type: Initial release
  • Version 1.1: 2013-10-02
    Changes: Database references
  • Version 1.2: 2013-11-13
    Changes: Database references
  • Version 1.3: 2019-02-27
    Changes: Data collection, Database references, Experimental preparation, Other
  • Version 1.4: 2023-12-20
    Changes: Data collection, Database references, Other, Refinement description