5DIC | pdb_00005dic

Fatty acid binding protein OBP56a from the oral disk of the blowfly Phormia regina

• PDB DOI: https://doi.org/10.2210/pdb5DIC/pdb

• Classification: Odorant-binding protein
• Organism(s): Phormia regina
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2015-08-31 Released: 2016-10-05 
• Deposition Author(s): Ishida, Y., Leal, W.S., Wilson, D.K.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.19 Å
• R-Value Free: 
  0.168 (Depositor), 0.170 (DCC) 
• R-Value Work: 
  0.131 (Depositor), 0.140 (DCC) 
• R-Value Observed: 
  0.133 (Depositor) 

Literature

In preparation

Ishida, Y., Leal, W.S., Wilson, D.K.

To be published.

Biological Assembly 1  

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

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

Macromolecule Content 

• Total Structure Weight: 13.79 kDa 
• Atom Count: 1,082 
• Modeled Residue Count: 115 
• Deposited Residue Count: 117 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Odorant-binding protein	A	117	Phormia regina	Mutation(s): 0  Gene Names: PregOBP56a
UniProt
Find proteins for L8B8J6 (Phormia regina) Explore L8B8J6  Go to UniProtKB:  L8B8J6

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
PLM	B [auth A], C [auth A]	PALMITIC ACID C16 H32 O2 IPCSVZSSVZVIGE-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.19 Å
• R-Value Free:  0.168 (Depositor), 0.170 (DCC) 
• R-Value Work:  0.131 (Depositor), 0.140 (DCC) 
• R-Value Observed: 0.133 (Depositor) 

Space Group: P 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 32.845	α = 105.35
b = 33.8	β = 106.44
c = 35.399	γ = 113.12

Software Package:

Software Name	Purpose
REFMAC	refinement
XDS	data reduction
SCALA	data scaling
PHASER	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2016-10-05 
Deposition Author(s): Ishida, Y., Leal, W.S., Wilson, D.K.

Revision History  

• Version 1.0: 2016-10-05
  Type: Initial release
  
• Version 1.1: 2024-11-13
  Changes: Data collection, Database references, Derived calculations, Structure summary