4PGA

GLUTAMINASE-ASPARAGINASE FROM PSEUDOMONAS 7A


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.7 Å
  • R-Value Free: 0.254 
  • R-Value Work: 0.199 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Ion binding induces closed conformation in Pseudomonas 7A glutaminase-asparaginase (PGA): crystal structure of the PGA-SO4(2-)-NH4+ complex at 1.7 A resolution.

Jakob, C.G.Lewinski, K.LaCount, M.W.Roberts, J.Lebioda, L.

(1997) Biochemistry 36: 923-931

  • DOI: 10.1021/bi961979x

  • PubMed Abstract: 
  • Pseudomonas 7A glutaminase-asparaginase (PGA) catalyzes the hydrolysis of D- and L-isomers of glutamine and asparagine. X-ray quality type-1 crystals of PGA have been obtained from 2.0 M ammonium sulfate. The space group is C222(1) with unit-cell dim ...

    Pseudomonas 7A glutaminase-asparaginase (PGA) catalyzes the hydrolysis of D- and L-isomers of glutamine and asparagine. X-ray quality type-1 crystals of PGA have been obtained from 2.0 M ammonium sulfate. The space group is C222(1) with unit-cell dimensions a = 78.62, b = 135.80, and c = 137.88 A. The tetrameric molecule is located on a crystallographic 2-fold axis, and two subunits form the asymmetric portion of the unit cell. The structure was solved by the molecular replacement method and refined at 1.7 A resolution to an R = 19.9% with a good geometry of the model, G = 0.05. The resultant electron density maps enabled us to resolve individual constituent atoms of most residues and introduce minor revisions to the amino acid sequence. The catalytic loop, Thr20-Gly40, is in the closed conformation with excellent electron density in both subunits. A sulfate ion and an ammonium ion are bound in the substrate binding site and interect with the loop. This interaction appears to be responsible for the observed closed conformation. New arguments supporting Thr20 as the catalytic nucleophile in the asparaginase activity are proposed.


    Related Citations: 
    • Refined Crystal Structure of Acinetobacter Glutaminasificans Glutaminase-Asparaginase
      Lubkowski, J.,Wlodawer, A.,Housset, D.,Weber, I.T.,Ammon, H.L.,Murphy, K.C.,Swain, A.L.
      () TO BE PUBLISHED --: --
    • A Left-Handed Crossover Involved in Amidohydrolase Catalysis. Crystal Structure of Erwinia Chrysanthemi L-Asparaginase with Bound L-Aspartate
      Miller, M.,Rao, J.K.,Wlodawer, A.,Gribskov, M.R.
      (1993) FEBS Lett. 328: 275
    • Crystal Structure of Escherichia Coli L-Asparaginase, an Enzyme Used in Cancer Therapy
      Swain, A.L.,Jaskolski, M.,Housset, D.,Rao, J.K.,Wlodawer, A.
      (1993) Proc.Natl.Acad.Sci.USA 90: 1474


    Organizational Affiliation

    Department of Chemistry and Biochemistry, University of South Carolina, Columbia 29208, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
GLUTAMINASE-ASPARAGINASE
A, B
337Pseudomonas sp. (strain ATCC 29598 / 7A)Mutation(s): 0 
Gene Names: ansB
EC: 3.5.1.38
Find proteins for P10182 (Pseudomonas sp. (strain ATCC 29598 / 7A))
Go to UniProtKB:  P10182
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
SO4
Query on SO4

Download SDF File 
Download CCD File 
A, B
SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
 Ligand Interaction
NH4
Query on NH4

Download SDF File 
Download CCD File 
A, B
AMMONIUM ION
H4 N
QGZKDVFQNNGYKY-UHFFFAOYSA-O
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.7 Å
  • R-Value Free: 0.254 
  • R-Value Work: 0.199 
  • Space Group: C 2 2 21
Unit Cell:
Length (Å)Angle (°)
a = 78.620α = 90.00
b = 135.800β = 90.00
c = 137.880γ = 90.00
Software Package:
Software NamePurpose
X-PLORrefinement
X-PLORphasing
X-PLORmodel building
BIOTEXdata reduction
BIOTEXdata scaling

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 1997-07-23
    Type: Initial release
  • Version 1.1: 2008-03-25
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Derived calculations, Version format compliance