1DQE

BOMBYX MORI PHEROMONE BINDING PROTEIN

• PDB DOI: https://doi.org/10.2210/pdb1DQE/pdb

• Classification: TRANSPORT PROTEIN
• Organism(s): Bombyx mori
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2000-01-04 Released: 2001-01-10 
• Deposition Author(s): Sandler, B.H., Nikonova, L., Leal, W.S., Clardy, J.

---

Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.80 Å
• R-Value Free: 0.273 
• R-Value Work: 0.210 

Literature

Sexual attraction in the silkworm moth: structure of the pheromone-binding-protein-bombykol complex.

Sandler, B.H., Nikonova, L., Leal, W.S., Clardy, J.

(2000) Chem Biol 7: 143-151

• PubMed: 10662696 
• DOI: https://doi.org/10.1016/s1074-5521(00)00078-8
• Primary Citation of Related Structures:  
  1DQE


• PubMed Abstract: 
  

  Insects use volatile organic molecules to communicate messages with remarkable sensitivity and specificity. In one of the most studied systems, female silkworm moths (Bombyx mori) attract male mates with the pheromone bombykol, a volatile 16-carbon alcohol. In the male moth's antennae, a pheromone-binding protein conveys bombykol to a membrane-bound receptor on a nerve cell. The structure of the pheromone-binding protein, its binding and recognition of bombykol, and its full role in signal transduction are not known.

---

Organizational Affiliation: 

Department of Chemistry and Chemical Biology, Cornell University, Ithaca, NY 14853-1301, USA.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 31.23 kDa 
• Atom Count: 2,377 
• Modelled Residue Count: 274 
• Deposited Residue Count: 274 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
PHEROMONE-BINDING PROTEIN	A, B	137	Bombyx mori	Mutation(s): 0
UniProt
Find proteins for P34174 (Bombyx mori) Explore P34174  Go to UniProtKB:  P34174

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
BOM	C [auth A], D [auth B]	HEXADECA-10,12-DIEN-1-OL C16 H30 O CIVIWCVVOFNUST-SCFJQAPRSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.80 Å
• R-Value Free: 0.273 
• R-Value Work: 0.210 
• Space Group: P 4₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 53.18	α = 90
b = 53.18	β = 90
c = 191.54	γ = 90

Software Package:

Software Name	Purpose
MOSFLM	data reduction
SCALA	data scaling
SHARP	phasing
REFMAC	refinement
CCP4	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2001-01-10 
Deposition Author(s): Sandler, B.H., Nikonova, L., Leal, W.S., Clardy, J.

Revision History  

• Version 1.0: 2001-01-10
  Type: Initial release
  
• Version 1.1: 2008-04-27
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance