1ATG

AZOTOBACTER VINELANDII PERIPLASMIC MOLYBDATE-BINDING PROTEIN


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.20 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

  • DOI: 10.1016/s0969-2126(98)00151-8
  • Primary Citation of Related Structures:  
    1ATG

  • 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 consisting of two globular domains ...

    . 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:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
PERIPLASMIC MOLYBDATE-BINDING PROTEINA231Azotobacter vinelandiiMutation(s): 0 
UniProt
Find proteins for Q7SIH2 (Azotobacter vinelandii)
Explore Q7SIH2 
Go to UniProtKB:  Q7SIH2
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ7SIH2
Protein Feature View
Expand
  • Reference Sequence
Small Molecules
Ligands 4 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
WO4
Query on WO4

Download Ideal Coordinates CCD File 
B [auth A]TUNGSTATE(VI)ION
O4 W
PBYZMCDFOULPGH-UHFFFAOYSA-N
 Ligand Interaction
SO4
Query on SO4

Download Ideal Coordinates CCD File 
D [auth A]SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
 Ligand Interaction
EDO
Query on EDO

Download Ideal Coordinates CCD File 
E [auth A],
F [auth A]
1,2-ETHANEDIOL
C2 H6 O2
LYCAIKOWRPUZTN-UHFFFAOYSA-N
 Ligand Interaction
ACT
Query on ACT

Download Ideal Coordinates CCD File 
C [auth A]ACETATE ION
C2 H3 O2
QTBSBXVTEAMEQO-UHFFFAOYSA-M
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.20 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
b = 88.802β = 93.55
c = 41.746γ = 90
Software Package:
Software NamePurpose
VARIOUSmodel building
DMmodel building
Omodel building
REFMACrefinement
DENZOdata reduction
SCALEPACKdata scaling
CCP4phasing
DMphasing
OTHERS)phasing

Structure Validation

View Full Validation Report




Entry History 

Deposition Data

Revision History  (Full details and data files)

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