1JFD

STRUCTURE OF INORGANIC PYROPHOSPHATASE


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.2 Å
  • R-Value Free: 0.266 
  • R-Value Work: 0.192 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Crystal structure of Escherichia coli inorganic pyrophosphatase complexed with SO4(2-). Ligand-induced molecular asymmetry.

Avaeva, S.Kurilova, S.Nazarova, T.Rodina, E.Vorobyeva, N.Sklyankina, V.Grigorjeva, O.Harutyunyan, E.Oganessyan, V.Wilson, K.Dauter, Z.Huber, R.Mather, T.

(1997) FEBS Lett. 410: 502-508


  • PubMed Abstract: 
  • The three-dimensional structure of inorganic pyrophosphatase from Escherichia coli complexed with sulfate was determined at 2.2 A resolution using Patterson's search technique and refmed to an R-factor of 19.2%. Sulfate may be regarded as a structura ...

    The three-dimensional structure of inorganic pyrophosphatase from Escherichia coli complexed with sulfate was determined at 2.2 A resolution using Patterson's search technique and refmed to an R-factor of 19.2%. Sulfate may be regarded as a structural analog of phosphate, the product of the enzyme reaction, and as a structural analog of methyl phosphate, the irreversible inhibitor. Sulfate binds to the pyrophosphatase active site cavity as does phosphate and this diminishes molecular symmetry, converting the homohexamer structure form (alpha3)2 into alpha3'alpha3". The asymmetry of the molecule is manifested in displacements of protein functional groups and some parts of the polypeptide chain and reflects the interaction of subunits and their cooperation. The significance of re-arrangements for pyrophosphatase function is discussed.


    Related Citations: 
    • X-Ray Crystallographic Studies of Recombinant Inorganic Pyrophosphatase from Escherichia Coli
      Oganessyan, V.Yu.,Kurilova, S.A.,Vorobyeva, N.N.,Nazarova, T.I.,Popov, A.N.,Lebedev, A.A.,Avaeva, S.M.,Harutyunyan, E.H.
      (1994) FEBS Lett. 348: 301


    Organizational Affiliation

    A.N. Belozersky Institute of Physico-Chemical Biology, Moscow State University, Vorobyevy Gory, Russia.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
INORGANIC PYROPHOSPHATASE
A, B
175Escherichia coli (strain K12)Gene Names: ppa
EC: 3.6.1.1
Find proteins for P0A7A9 (Escherichia coli (strain K12))
Go to UniProtKB:  P0A7A9
Small Molecules
Ligands 1 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
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.2 Å
  • R-Value Free: 0.266 
  • R-Value Work: 0.192 
  • Space Group: H 3 2
Unit Cell:
Length (Å)Angle (°)
a = 110.400α = 90.00
b = 110.400β = 90.00
c = 154.800γ = 120.00
Software Package:
Software NamePurpose
DENZOdata reduction
REFMACrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 1997-12-03
    Type: Initial release
  • Version 1.1: 2008-03-03
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Derived calculations, Version format compliance