Crystal structure of adenylate kinase from burkholderia pseudomallei

Experimental Data Snapshot

  • Resolution: 2.10 Å
  • R-Value Free: 0.295 
  • R-Value Work: 0.235 
  • R-Value Observed: 0.238 

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Structural characterization of Burkholderia pseudomallei adenylate kinase (Adk): profound asymmetry in the crystal structure of the 'open' state.

Buchko, G.W.Robinson, H.Abendroth, J.Staker, B.L.Myler, P.J.

(2010) Biochem Biophys Res Commun 394: 1012-1017

  • DOI: https://doi.org/10.1016/j.bbrc.2010.03.112
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 

    In all organisms adenylate kinases (Adks) play a vital role in cellular energy metabolism and nucleic acid synthesis. Due to differences in catalytic properties between the Adks found in prokaryotes and in the cytoplasm of eukaryotes, there is interest in targeting this enzyme for new drug therapies against infectious bacterial agents. Here we report the 2.1A resolution crystal structure for the 220-residue Adk from Burkholderia pseudomallei (BpAdk), the etiological agent responsible for the infectious disease melioidosis. The general structure of apo BpAdk is similar to other Adk structures, composed of a CORE subdomain with peripheral ATP-binding (ATP(bd)) and LID subdomains. The two molecules in the asymmetric unit have significantly different conformations, with a backbone RMSD of 1.46 A. These two BpAdk conformations may represent 'open' Adk sub-states along the preferential pathway to the 'closed' substrate-bound state.

  • Organizational Affiliation

    Biological Sciences Division and Seattle Structural Genomics Center for Infectious Disease, Pacific Northwest National Laboratory, Richland, WA 99352, USA. garry.buchko@pnl.gov

Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Adenylate kinase
A, B
230Burkholderia pseudomallei 1710bMutation(s): 0 
Gene Names: adkBURPS1710b_1080
Find proteins for Q3JVB1 (Burkholderia pseudomallei (strain 1710b))
Explore Q3JVB1 
Go to UniProtKB:  Q3JVB1
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ3JVB1
Sequence Annotations
  • Reference Sequence
Experimental Data & Validation

Experimental Data

Unit Cell:
Length ( Å )Angle ( ˚ )
a = 62.23α = 90
b = 66β = 113.69
c = 63.76γ = 90
Software Package:
Software NamePurpose
ARP/wARPmodel building
XDSdata reduction
XSCALEdata scaling

Structure Validation

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Entry History 

Revision History  (Full details and data files)

  • Version 1.0: 2009-06-02
    Type: Initial release
  • Version 1.1: 2011-07-13
    Changes: Version format compliance
  • Version 1.2: 2013-10-30
    Changes: Database references