4DQ3 | pdb_00004dq3

Bovine beta-lactoglobulin complex with oleic acid

• PDB DOI: https://doi.org/10.2210/pdb4DQ3/pdb
• Entry: 4DQ3 supersedes: 3QZJ

• Classification: TRANSPORT PROTEIN
• Organism(s): Bos taurus
• Mutation(s): No 


• Deposited: 2012-02-15 Released: 2012-02-29 
• Deposition Author(s): Loch, J.I., Lewinski, K.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.10 Å
• R-Value Free: 
  0.289 (Depositor), 0.291 (DCC) 
• R-Value Work: 
  0.231 (Depositor), 0.231 (DCC) 
• R-Value Observed: 
  0.237 (Depositor) 

Starting Model: experimental

Literature

Binding of 18-carbon unsaturated fatty acids to bovine beta-lactoglobulin--structural and thermodynamic studies.

Loch, J.I., Bonarek, P., Polit, A., Ries, D., Dziedzicka-Wasylewska, M., Lewinski, K.

(2013) Int J Biol Macromol 57: 226-231

• PubMed: 23500663 
• DOI: https://doi.org/10.1016/j.ijbiomac.2013.03.021
• Primary Citation Related Structures: 
  4DQ3, 4DQ4


• PubMed Abstract: 
  

  Binding of 18-carbon unsaturated oleic and linoleic acid to lactoglobulin, the milk protein, has been studied for the first time by isothermal titration calorimetry (ITC) and X-ray crystallography. Crystal structures determined to resolution 2.10 Å have revealed presence of single fatty acid molecule bound in β-barrel, the primary binding site, with carboxyl group hydrogen bonded to Glu62. The aliphatic chain of both ligands is in almost linear conformation and their interactions with the protein are similar to observed in structure of lactoglobulin with stearic acid. The ITC experiments showed that binding of unsaturated fatty acids to LGB is spontaneous and exothermic. The stoichiometry of binding is lower than 1.0, association constant is 9.7 × 10(5)M(-1) and 9.0 × 10(5)M(-1) for oleic and linoleic acid, respectively. Solvent relief seems to be the major contributor to entropic changes upon fatty acid binding to lactoglobulin.

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Organizational Affiliation: 
• Faculty of Chemistry, Jagiellonian University, Ingardena 3, 30-060 Kraków, Poland.

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 1 assigned by authors.

Biological Assembly 2  

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

Biological assembly 2 generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 18.72 kDa 
• Atom Count: 1,378 
• Modeled Residue Count: 158 
• Deposited Residue Count: 162 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Beta-lactoglobulin	A	162	Bos taurus	Mutation(s): 0
UniProt
Find proteins for P02754 (Bos taurus) Explore P02754  Go to UniProtKB:  P02754

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
OLA	B [auth A]	OLEIC ACID C18 H34 O2 ZQPPMHVWECSIRJ-KTKRTIGZSA-N
GOL	D [auth A]	GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N
EOH	C [auth A]	ETHANOL C2 H6 O LFQSCWFLJHTTHZ-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.10 Å
• R-Value Free:  0.289 (Depositor), 0.291 (DCC) 
• R-Value Work:  0.231 (Depositor), 0.231 (DCC) 
• R-Value Observed: 0.237 (Depositor) 

Space Group: P 3₂ 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 53.46	α = 90
b = 53.46	β = 90
c = 111.57	γ = 120

Software Package:

Software Name	Purpose
CrysalisPro	data collection
MOLREP	phasing
REFMAC	refinement
CrysalisPro	data reduction
SCALA	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2012-02-29 
Deposition Author(s): Loch, J.I., Lewinski, K.
• This entry supersedes: 3QZJ

Revision History  

• Version 1.0: 2012-02-29
  Type: Initial release
  
• Version 1.1: 2013-04-03
  Changes: Database references
• Version 1.2: 2013-08-28
  Changes: Database references
• Version 1.3: 2023-09-13
  Changes: Data collection, Database references, Derived calculations, Refinement description
• Version 1.4: 2024-10-16
  Changes: Structure summary