1PBO | pdb_00001pbo

COMPLEX OF BOVINE ODORANT BINDING PROTEIN (OBP) WITH A SELENIUM CONTAINING ODORANT

• PDB DOI: https://doi.org/10.2210/pdb1PBO/pdb

• Classification: ODORANT-BINDING
• Organism(s): Bos taurus
• Mutation(s): No 


• Deposited: 1996-07-15 Released: 1997-07-23 
• Deposition Author(s): Amzel, L.M., Bianchet, M.A., Monaco, H., Bains, G.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.20 Å
• R-Value Work: 
  0.190 (Depositor) 
• R-Value Observed: 
  0.190 (Depositor) 

Literature

The three-dimensional structure of bovine odorant binding protein and its mechanism of odor recognition.

Bianchet, M.A., Bains, G., Pelosi, P., Pevsner, J., Snyder, S.H., Monaco, H.L., Amzel, L.M.

(1996) Nat Struct Biol 3: 934-939

• PubMed: 8901871 
• DOI: https://doi.org/10.1038/nsb1196-934
• Primary Citation Related Structures: 
  1PBO


• PubMed Abstract: 
  

  Odorant binding protein (OBP) is the major odorant binding component of mammalian nasal mucosa. The two structures of bovine OBP reported in this paper (one crystallized as purified and one soaked in the presence of a selenium-containing odorant) show that: (i) the OBP dimer is composed of two compact domains related by an approximate two-fold axis of symmetry; (ii) between residues 122 and 123 the polypeptide chains cross from one domain to the other such that each domain is formed by residues from both monomers; (iii) purified OBP already contains two bound odorant molecules (one per monomer)-odorant binding occurs by replacement of these molecules with the added odorant; and (iv) the structure of the odorant binding site can explain OBP's extraordinarily broad odorant specificity.

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Organizational Affiliation: 
• Department of Biophysics and Biophysical Chemistry, University of Pisa, Italy. [e-mail]

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 1 assigned by authors and generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 37.46 kDa 
• Atom Count: 2,589 
• Modeled Residue Count: 308 
• Deposited Residue Count: 318 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
ODORANT BINDING PROTEIN	A, B	159	Bos taurus	Mutation(s): 0
UniProt
Find proteins for P07435 (Bos taurus) Explore P07435  Go to UniProtKB:  P07435

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
SES	C [auth A], D [auth B]	4-butyl-5-propyl-1,3-selenazol-2-amine C10 H18 N2 Se DOUUMUUUWUAPPC-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.20 Å
• R-Value Work:  0.190 (Depositor) 
• R-Value Observed: 0.190 (Depositor) 

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 41.87	α = 90
b = 65.18	β = 98.13
c = 55.54	γ = 90

Software Package:

Software Name	Purpose
X-PLOR	model building
X-PLOR	refinement
XENGEN	data reduction
X-PLOR	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 1997-07-23 
Deposition Author(s): Amzel, L.M., Bianchet, M.A., Monaco, H., Bains, G.

Revision History  

• Version 1.0: 1997-07-23
  Type: Initial release
  
• Version 1.1: 2008-03-03
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Non-polymer description, Version format compliance
• Version 1.3: 2024-02-14
  Changes: Data collection, Database references, Derived calculations, Other