3BFA

Crystal structure of a pheromone binding protein from Apis mellifera in complex with the Queen mandibular pheromone


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.25 Å
  • R-Value Free: 0.236 
  • R-Value Work: 0.181 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Structural basis of the honey bee PBP pheromone and pH-induced conformational change

Pesenti, M.E.Spinelli, S.Bezirard, V.Briand, L.Pernollet, J.C.Tegoni, M.Cambillau, C.

(2008) J.Mol.Biol. 380: 158-169

  • DOI: 10.1016/j.jmb.2008.04.048
  • Primary Citation of Related Structures:  
  • Also Cited By: 3FE9, 3FE8, 3FE6, 3BJH

  • PubMed Abstract: 
  • The behavior of insects and their perception of their surroundings are driven, in a large part, by odorants and pheromones. This is especially true for social insects, such as the honey bee, where the queen controls the development and the caste stat ...

    The behavior of insects and their perception of their surroundings are driven, in a large part, by odorants and pheromones. This is especially true for social insects, such as the honey bee, where the queen controls the development and the caste status of the other individuals. Pheromone perception is a complex phenomenon relying on a cascade of recognition events, initiated in antennae by pheromone recognition by a pheromone-binding protein and finishing with signal transduction at the axon membrane level. With to the objective of deciphering this initial step, we have determined the structures of the bee antennal pheromone-binding protein (ASP1) in the apo form and in complex with the main component of the queen mandibular pheromonal mixture, 9-keto-2(E)-decenoic acid (9-ODA) and with nonpheromonal components. In the apo protein, the C terminus obstructs the binding site. In contrast, ASP1 complexes have different open conformations, depending on the ligand shape, leading to different volumes of the binding cavity. The binding site integrity depends on the C terminus (111-119) conformation, which involves the interplay of two factors; i.e. the presence of a ligand and a low pH. Ligand binding to ASP1 is favored by low pH, opposite to what is observed with other pheromone-binding proteins, such as those of Bombyx mori and Anopheles gambiae.


    Organizational Affiliation

    Architecture et Fonction des Macromolécules Biologiques, UMR 6098 CNRS and Universités de Marseille, Marseille, France.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Pheromone-binding protein ASP1
A
119Apis melliferaMutation(s): 0 
Gene Names: Obp1
Find proteins for Q8WRW5 (Apis mellifera)
Go to UniProtKB:  Q8WRW5
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
GOL
Query on GOL

Download SDF File 
Download CCD File 
A
GLYCEROL
GLYCERIN; PROPANE-1,2,3-TRIOL
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
 Ligand Interaction
9OD
Query on 9OD

Download SDF File 
Download CCD File 
A
(2Z)-9-oxodec-2-enoic acid
9-keto-2(E)-decenoic acid
C10 H16 O3
INJRDZMWIAYEMM-VURMDHGXSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.25 Å
  • R-Value Free: 0.236 
  • R-Value Work: 0.181 
  • Space Group: C 2 2 21
Unit Cell:
Length (Å)Angle (°)
a = 77.461α = 90.00
b = 85.019β = 90.00
c = 48.345γ = 90.00
Software Package:
Software NamePurpose
MOSFLMdata reduction
ADSCdata collection
SCALAdata scaling
REFMACrefinement
REFMACphasing

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2008-06-10
    Type: Initial release
  • Version 1.1: 2011-07-13
    Type: Advisory, Version format compliance