1P28

The crystal structure of a pheromone binding protein from the cockroach Leucophaea maderae in complex with a component of the pheromonal blend: 3-hydroxy-butan-2-one.

Structural Biology Knowledgebase: 1P28 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.7 Å
  • R-Value Free: 0.184
  • R-Value Work: 0.141

Literature

Macromolecules
Sequence Display for 1P28

Classification: TRANSPORT PROTEIN

Total Structure Weight: 28670.57

Macromolecule Entities
Molecule Chains Length Organism Details
pheromone binding protein A, B 129 Rhyparobia maderae Gene Name(s):
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 2 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
HBR
Query on HBR

A, B R,3-HYDROXYBUTAN-2-ONE
C4 H8 O2
ROWKJAVDOGWPAT-GSVOUGTGSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
HBS
Query on HBS

A, B S,3-HYDROXYBUTAN-2-ONE
C4 H8 O2
ROWKJAVDOGWPAT-VKHMYHEASA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
HBR N/A in BindingDB
Kd: 3800 nM  BindingMOAD
N/A in PDBbind
HBS N/A in BindingDB
Kd: 3800 nM  BindingMOAD
N/A in PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.7 Å
  • R-Value Free: 0.184
  • R-Value Work: 0.141
  • Space Group: P 1 21 1
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 38.22 α = 90.00
b = 62.21 β = 92.47
c = 45.12 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2003-04-15
  • Released Date: 2003-08-05
  • Deposition author(s): Lartigue, A., Gruez, A., Spinelli, S., Riviere, S., Brossut, R., Tegoni, M., Cambillau, C.

Revision History

  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4
  • 2011-07-13
    Type: Flag residual B-value | Details: Tagged residual B temperature factor