Experimental Data Snapshot

  • Resolution: 2.79 Å
  • R-Value Free: 0.229 
  • R-Value Work: 0.214 
  • R-Value Observed: 0.215 

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Tracking in Atomic Detail the Functional Specializations in Viral Reca Helicases that Occur During Evolution.

El Omari, K.Meier, C.Kainov, D.Sutton, G.Grimes, J.M.Poranen, M.M.Bamford, D.H.Tuma, R.Stuart, D.I.Mancini, E.J.

(2013) Nucleic Acids Res 41: 9396

  • DOI: https://doi.org/10.1093/nar/gkt713
  • Primary Citation of Related Structures:  
    4BLO, 4BLP, 4BLQ, 4BLR, 4BLS, 4BLT, 4BWY

  • PubMed Abstract: 

    Many complex viruses package their genomes into empty protein shells and bacteriophages of the Cystoviridae family provide some of the simplest models for this. The cystoviral hexameric NTPase, P4, uses chemical energy to translocate single-stranded RNA genomic precursors into the procapsid. We previously dissected the mechanism of RNA translocation for one such phage, 12, and have now investigated three further highly divergent, cystoviral P4 NTPases (from 6, 8 and 13). High-resolution crystal structures of the set of P4s allow a structure-based phylogenetic analysis, which reveals that these proteins form a distinct subfamily of the RecA-type ATPases. Although the proteins share a common catalytic core, they have different specificities and control mechanisms, which we map onto divergent N- and C-terminal domains. Thus, the RNA loading and tight coupling of NTPase activity with RNA translocation in 8 P4 is due to a remarkable C-terminal structure, which wraps right around the outside of the molecule to insert into the central hole where RNA binds to coupled L1 and L2 loops, whereas in 12 P4, a C-terminal residue, serine 282, forms a specific hydrogen bond to the N7 of purines ring to confer purine specificity for the 12 enzyme.

  • Organizational Affiliation

    Division of Structural Biology, The Wellcome Trust Centre for Human Genetics, University of Oxford, Headington, Oxford OX3 7BN, UK, Institute for Molecular Medicine Finland (FIMM), University of Helsinki, 00290 Helsinki, Finland, Department of Environmental Research, Siauliai University, Vilniaus gatvė 88, 76285 Siauliai, Lithuania, Diamond Light Source Limited, Harwell Science and Innovation Campus, Didcot, Oxfordshire OX11 0DE, UK, Department of Biosciences, University of Helsinki, Biocenter 2, PO Box 56, 00014 Helsinki, Finland, Institute of Biotechnology, University of Helsinki, Biocenter 2, PO Box 56, 00014 Helsinki, Finland and Astbury Centre for Structural Molecular Biology and School of Cellular and Molecular Biology, University of Leeds, Leeds LS2 9JT, UK.

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
280Pseudomonas phage phi8Mutation(s): 0 
Find proteins for Q9MC14 (Pseudomonas phage phi8)
Explore Q9MC14 
Go to UniProtKB:  Q9MC14
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ9MC14
Sequence Annotations
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Resolution: 2.79 Å
  • R-Value Free: 0.229 
  • R-Value Work: 0.214 
  • R-Value Observed: 0.215 
  • Space Group: P 21 21 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 138.94α = 90
b = 159.57β = 90
c = 100.33γ = 90
Software Package:
Software NamePurpose
HKL-2000data reduction
HKL-2000data scaling

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2013-08-21
    Type: Initial release
  • Version 1.1: 2013-11-13
    Changes: Database references