Biological Assembly 1  

 3D View: Structure | 1D-3D View | Electron Density | Validation Report

Global Symmetry: Dihedral - D2  (3D View)
Global Stoichiometry: Homo 4-mer - A4 

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 83.06 kDa 
• Atom Count: 5216 
• Modelled Residue Count: 632 
• Deposited Residue Count: 724 
• Unique protein chains: 1

2A2U

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

• PDB DOI: 10.2210/pdb2A2U/pdb

• Classification: LIPID BINDING PROTEIN
• Organism(s): Rattus norvegicus
• Mutation(s): No 


• Deposited: 1998-11-19 Released: 1999-08-26 
• Deposition Author(s): Chaudhuri, B.N., Kleywegt, G.J., Jones, T.A.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.50 Å
• R-Value Free: 0.264 
• R-Value Work: 0.248 
• R-Value Observed: 0.248 

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 D Biol Crystallogr 55: 753-762

• PubMed: 10089305 
• DOI: 10.1107/s0907444998017211
• Primary Citation of Related Structures:  
  2A2G, 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 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.

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Related Citations: 

• 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

• 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

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Organizational Affiliation: 

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

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
PROTEIN (ALPHA-2U-GLOBULIN)	A, B, C, D	181	Rattus norvegicus	Mutation(s): 0
UniProt
Find proteins for P02761 (Rattus norvegicus) Explore P02761  Go to UniProtKB:  P02761

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.50 Å
• R-Value Free: 0.264 
• R-Value Work: 0.248 
• R-Value Observed: 0.248 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 106.82	α = 90
b = 62.34	β = 90
c = 114.19	γ = 90

Software Package:

Software Name	Purpose
AMoRE	phasing
X-PLOR	refinement

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 1998-11-19 
• Released Date: 1999-08-26 
Deposition Author(s): Chaudhuri, B.N., Kleywegt, G.J., Jones, T.A.

Revision History  

• Version 1.0: 1999-08-26
  Type: Initial release
  
• Version 1.1: 2008-04-26
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2017-10-04
  Changes: Refinement description
• Version 1.4: 2018-04-04
  Changes: Data collection