2H8V | pdb_00002h8v

Structure of empty Pheromone Binding Protein ASP1 from the Honeybee Apis mellifera L

• PDB DOI: https://doi.org/10.2210/pdb2H8V/pdb

• Classification: TRANSPORT PROTEIN
• Organism(s): Apis mellifera
• Expression System: Komagataella pastoris
• Mutation(s): No 


• Deposited: 2006-06-08 Released: 2007-12-11 
• Deposition Author(s): Pesenti, M.E., Spinelli, S., Briand, L., Pernollet, J.-C., Cambillau, C., Tegoni, M.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.60 Å
• R-Value Free: 
  0.266 (Depositor), 0.283 (DCC) 
• R-Value Work: 
  0.210 (Depositor), 0.228 (DCC) 
• R-Value Observed: 
  0.218 (Depositor) 

Literature

Conformational Changes of the Pheromone Binding Protein ASP1 from the Honeybee Apis mellifera L upon Ligand Binding

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

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 13.61 kDa 
• Atom Count: 946 
• Modeled Residue Count: 117 
• Deposited Residue Count: 119 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Pheromone-binding protein ASP1	A	119	Apis mellifera	Mutation(s): 0
UniProt
Find proteins for Q9U9J6 (Apis mellifera) Explore Q9U9J6  Go to UniProtKB:  Q9U9J6

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
SO4	B [auth A], C [auth A]	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L
GOL	E [auth A], F [auth A]	GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N
CL	D [auth A]	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.60 Å
• R-Value Free:  0.266 (Depositor), 0.283 (DCC) 
• R-Value Work:  0.210 (Depositor), 0.228 (DCC) 
• R-Value Observed: 0.218 (Depositor) 

Space Group: C 2 2 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 76.098	α = 90
b = 85.997	β = 90
c = 50.839	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
ADSC	data collection
SCALA	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2007-12-11 
Deposition Author(s): Pesenti, M.E., Spinelli, S., Briand, L., Pernollet, J.-C., Cambillau, C., Tegoni, M.

Revision History  

• Version 1.0: 2007-12-11
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Advisory, Version format compliance
• Version 1.2: 2017-10-18
  Changes: Refinement description
• Version 1.3: 2024-10-30
  Changes: Data collection, Database references, Derived calculations, Structure summary