2A2G

THE CRYSTAL STRUCTURES OF A2U-GLOBULIN AND ITS COMPLEX WITH A HYALINE DROPLET INDUCER.


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.9 Å
  • R-Value Free: 0.260 
  • R-Value Work: 0.248 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

The structures of alpha 2u-globulin and its complex with a hyaline droplet inducer.

Chaudhuri, B.N.Kleywegt, G.J.Bjorkman, J.Lehman-McKeeman, L.D.Oliver, J.D.Jones, T.A.

(1999) Acta Crystallogr.,Sect.D 55: 753-762

  • Primary Citation of Related Structures:  2A2U

  • PubMed Abstract: 
  • Alpha 2u-globulin (A2U) is the major urinary protein excreted by adult male rats. The structure of a monoclinic crystal form of A2U was reported in 1992 [Böcskei et al. (1992). Nature (London), 360, 186-188]. The structures of an orthorhombic crystal ...

    Alpha 2u-globulin (A2U) is the major urinary protein excreted by adult male rats. The structure of a monoclinic crystal form of A2U was reported in 1992 [Böcskei et al. (1992). Nature (London), 360, 186-188]. The structures of an orthorhombic crystal form of A2U at 2. 5 A resolution (refined to an R factor of 0.248; Rfree = 0.264) and of a complex between A2U and d-limonene 1,2-epoxide (DLO) at 2.9 A resolution (R factor = 0.248; Rfree = 0.260) are presented here. DLO is one of a diverse group of chemicals which cause a male rat-specific renal carcinogenesis called hyaline-droplet nephropathy. The rate-determining step in the development of this disorder is the binding of the toxin to A2U. Comparison of the cavities in A2U and in the corresponding mouse urinary protein (MUP) reveal that the former is tailor-made for small oval hydrophobic ligands such as DLO. The cavity in MUP is more shallow and elongated and cannot easily accommodate such ligands.


    Related Citations: 
    • Pheromone Binding to Two Rodent Urinary Proteins Revealed by X-Ray Crystallography
      Bocskei, Z.,Groom, C.R.,Flower, D.R.,Wright, C.E.,Phillips, S.E.V.,Cavaggioni, A.,Findlay, J.B.C.,North, A.C.T.
      (1992) Nature 360: 186
    • Lipid-Binding Proteins: A Family of Fatty Acid and Retinoid Transport Proteins
      Banaszak, L.,Winter, N.,Xu, Z.,Bernlohr, D.A.,Cowan, S.W.,Jones, T.A.
      (1994) Adv.Protein Chem. 45: 89


    Organizational Affiliation

    Department of Cell and Molecular Biology, Uppsala University, Biomedical Centre, Box 590, SE-751 24 Uppsala, Sweden.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
PROTEIN (ALPHA-2U-GLOBULIN)
A, B, C, D
181Rattus norvegicusN/A
Find proteins for P02761 (Rattus norvegicus)
Go to UniProtKB:  P02761
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
LEO
Query on LEO

Download SDF File 
Download CCD File 
A, B, C, D
D-LIMONENE 1,2-EPOXIDE
C10 H16 O
CCEFMUBVSUDRLG-BBBLOLIVSA-N
 Ligand Interaction
External Ligand Annotations 
IDBinding Affinity (Sequence Identity %)
LEOKd: 100 nM PDBBIND
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.9 Å
  • R-Value Free: 0.260 
  • R-Value Work: 0.248 
  • Space Group: P 21 21 21
Unit Cell:
Length (Å)Angle (°)
a = 62.810α = 90.00
b = 98.010β = 90.00
c = 123.370γ = 90.00
Software Package:
Software NamePurpose
CCP4data scaling
CNSrefinement
SCALAdata scaling
DENZOdata reduction
AMoREphasing

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 1999-08-13
    Type: Initial release
  • Version 1.1: 2008-04-26
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance