1ATG

AZOTOBACTER VINELANDII PERIPLASMIC MOLYBDATE-BINDING PROTEIN


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.2 Å
  • R-Value Free: 0.183 
  • R-Value Work: 0.164 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Ligand size is a major determinant of specificity in periplasmic oxyanion-binding proteins: the 1.2 A resolution crystal structure of Azotobacter vinelandii ModA.

Lawson, D.M.Williams, C.E.Mitchenall, L.A.Pau, R.N.

(1998) Structure 6: 1529-1539


  • PubMed Abstract: 
  • . Periplasmic receptors constitute a diverse class of binding proteins that differ widely in size, sequence and ligand specificity. Nevertheless, almost all of them display a common beta/alpha folding motif and have similar tertiary structures consis ...

    . Periplasmic receptors constitute a diverse class of binding proteins that differ widely in size, sequence and ligand specificity. Nevertheless, almost all of them display a common beta/alpha folding motif and have similar tertiary structures consisting of two globular domains. The ligand is bound at the bottom of a deep cleft, which lies at the interface between these two domains. The oxyanion-binding proteins are notable in that they can discriminate between very similar ligands.


    Related Citations: 
    • Protein Ligands for Molybdate. Specificity and Charge Stabilisation at the Anion-Binding Sites of Periplasmic and Intracellular Molybdate-Binding Proteins of Azotobacter Vinelandii
      Lawson, D.M.,Williams, C.E.M.,White, D.J.,Choay, A.P.,Mitchenall, L.A.,Pau, R.N.
      (1997) J.Chem.Soc.,Dalton Trans. --: 3981


    Organizational Affiliation

    Nitrogen Fixation Laboratory John Innes Centre Norwich NR4 7UH UK. david.lawson@bbsrc.ac.uk




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
PERIPLASMIC MOLYBDATE-BINDING PROTEIN
A
231Azotobacter vinelandiiN/A
Find proteins for Q7SIH2 (Azotobacter vinelandii)
Go to UniProtKB:  Q7SIH2
Small Molecules
Ligands 4 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
SO4
Query on SO4

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

Download SDF File 
Download CCD File 
A
ACETATE ION
C2 H3 O2
QTBSBXVTEAMEQO-UHFFFAOYSA-M
 Ligand Interaction
EDO
Query on EDO

Download SDF File 
Download CCD File 
A
1,2-ETHANEDIOL
ETHYLENE GLYCOL
C2 H6 O2
LYCAIKOWRPUZTN-UHFFFAOYSA-N
 Ligand Interaction
WO4
Query on WO4

Download SDF File 
Download CCD File 
A
TUNGSTATE(VI)ION
O4 W
PBYZMCDFOULPGH-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.2 Å
  • R-Value Free: 0.183 
  • R-Value Work: 0.164 
  • Space Group: P 1 21 1
Unit Cell:
Length (Å)Angle (°)
a = 32.934α = 90.00
b = 88.802β = 93.55
c = 41.746γ = 90.00
Software Package:
Software NamePurpose
DENZOdata reduction
VARIOUSmodel building
DMmodel building
CCP4phasing
DMphasing
OTHERS)phasing
Omodel building
SCALEPACKdata scaling
REFMACrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 1998-10-14
    Type: Initial release
  • Version 1.1: 2008-03-03
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance