2WH5

Crystal structure of human acyl-CoA binding domain 4 complexed with stearoyl-CoA

• PDB DOI: https://doi.org/10.2210/pdb2WH5/pdb

• Classification: LIPID BINDING PROTEIN
• Organism(s): Homo sapiens
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2009-04-30 Released: 2009-07-28 
• Deposition Author(s): Yue, W.W., Shafqat, N., Ugochukwu, E., Savitsky, P., Johansson, C., Salah, E., Roos, A.K., Chaikuad, A., von Delft, F., Arrowsmith, C., Weigelt, J., Edwards, A., Bountra, C., Oppermann, U.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.60 Å
• R-Value Free: 0.236 
• R-Value Work: 0.206 
• R-Value Observed: 0.207 

Starting Model: experimental

Literature

Crystal Structure of Human Acyl-Coa Binding Domain 4

Shafqat, N., Yue, W.W., Oppermann, U.

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)

Biological Assembly 2  

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

Biological assembly 2 assigned by authors and generated by PISA (software)

Biological Assembly 3  

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

Biological assembly 3 assigned by authors and generated by PISA (software)

Biological Assembly 4  

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

Biological assembly 4 assigned by authors and generated by PISA (software)

Biological Assembly 5  

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

Biological assembly 5 assigned by authors and generated by PISA (software)

Biological Assembly 6  

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

Biological assembly 6 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 82.32 kDa 
• Atom Count: 4,951 
• Modelled Residue Count: 536 
• Deposited Residue Count: 636 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
ACYL-COA-BINDING DOMAIN-CONTAINING PROTEIN 4	A, B, C, D, E, F	106	Homo sapiens	Mutation(s): 0
UniProt & NIH Common Fund Data Resources
Find proteins for Q8NC06 (Homo sapiens) Explore Q8NC06  Go to UniProtKB:  Q8NC06
PHAROS:  Q8NC06 GTEx:  ENSG00000181513

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
ST9	H [auth A], J [auth B], L [auth C], N [auth D], Q [auth E], T [auth F]	STEAROYL-COENZYME A C39 H70 N7 O17 P3 S SIARJEKBADXQJG-LFZQUHGESA-N
COA	O [auth D], R [auth E]	COENZYME A C21 H36 N7 O16 P3 S RGJOEKWQDUBAIZ-IBOSZNHHSA-N
STE	G [auth A], I [auth B], K [auth C], M [auth D], P [auth E], S [auth F]	STEARIC ACID C18 H36 O2 QIQXTHQIDYTFRH-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.60 Å
• R-Value Free: 0.236 
• R-Value Work: 0.206 
• R-Value Observed: 0.207 
• Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 85.06	α = 90
b = 95.1	β = 110.28
c = 119.74	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
MOSFLM	data reduction
SCALA	data scaling
PHASER	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2009-07-28 
Deposition Author(s): Yue, W.W., Shafqat, N., Ugochukwu, E., Savitsky, P., Johansson, C., Salah, E., Roos, A.K., Chaikuad, A., von Delft, F., Arrowsmith, C., Weigelt, J., Edwards, A., Bountra, C., Oppermann, U.

Revision History  

• Version 1.0: 2009-07-28
  Type: Initial release
  
• Version 1.1: 2012-12-05
  Changes: Database references, Derived calculations, Other, Refinement description, Structure summary, Version format compliance
• Version 1.2: 2013-09-25
  Changes: Advisory, Non-polymer description, Source and taxonomy
• Version 1.3: 2023-12-13
  Changes: Data collection, Database references, Derived calculations, Other, Refinement description