3EPY | pdb_00003epy

Crystal Structure of human acyl-CoA binding domain 7 complexed with palmitoyl-Coa

• PDB DOI: https://doi.org/10.2210/pdb3EPY/pdb

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


• Deposited: 2008-09-30 Released: 2009-01-20 
• Deposition Author(s): Kavanagh, K.L., Salah, E., Yue, W.W., Savitsky, P., Murray, J.W., Arrowsmith, C.H., Weigelt, J., Edwards, A.M., Bountra, C., von Delft, F., Oppermann, U., Structural Genomics Consortium (SGC)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.00 Å
• R-Value Free: 
  0.257 (Depositor), 0.251 (DCC) 
• R-Value Work: 
  0.203 (Depositor), 0.203 (DCC) 
• R-Value Observed: 
  0.206 (Depositor) 

Starting Model: experimental

Literature

Crystal Structure of human acyl-CoA binding domain 7 complexed with palmitoyl-Coa

Kavanagh, K.L., Salah, E., Yue, W.W., Savitsky, P., Murray, J.W., Arrowsmith, C.H., Weigelt, J., Edwards, A.M., Bountra, C., von Delft, F., Oppermann, U.

To be published.

Biological Assembly 1  

Global Symmetry: Dihedral - D2  (Explore in 3D)
Global Stoichiometry: Homo 4-mer - A4 

Biological assembly 1 generated by PISA (software)

Biological Assembly 2  

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

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

Macromolecule Content 

• Total Structure Weight: 21.83 kDa 
• Atom Count: 1,476 
• Modeled Residue Count: 174 
• Deposited Residue Count: 178 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Acyl-CoA-binding domain-containing protein 7	A, B	89	Homo sapiens	Mutation(s): 0  Gene Names: ACBD7
UniProt & NIH Common Fund Data Resources
Find proteins for Q8N6N7 (Homo sapiens) Explore Q8N6N7  Go to UniProtKB:  Q8N6N7
PHAROS:  Q8N6N7 GTEx:  ENSG00000176244

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
COA	C [auth A], E [auth B]	COENZYME A C21 H36 N7 O16 P3 S RGJOEKWQDUBAIZ-IBOSZNHHSA-N
PLM	D [auth A], F [auth B]	PALMITIC ACID C16 H32 O2 IPCSVZSSVZVIGE-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.00 Å
• R-Value Free:  0.257 (Depositor), 0.251 (DCC) 
• R-Value Work:  0.203 (Depositor), 0.203 (DCC) 
• R-Value Observed: 0.206 (Depositor) 

Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 114.515	α = 90
b = 27.922	β = 102.79
c = 60.437	γ = 90

Software Package:

Software Name	Purpose
MAR345	data collection
PHASER	phasing
PHENIX	refinement
MOSFLM	data reduction
SCALA	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2009-01-20 
Deposition Author(s): Kavanagh, K.L., Salah, E., Yue, W.W., Savitsky, P., Murray, J.W., Arrowsmith, C.H., Weigelt, J., Edwards, A.M., Bountra, C., von Delft, F., Oppermann, U., Structural Genomics Consortium (SGC)

Revision History  

• Version 1.0: 2009-01-20
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 1.2: 2017-10-25
  Changes: Refinement description
• Version 1.3: 2018-01-31
  Changes: Database references, Structure summary
• Version 1.4: 2023-09-06
  Changes: Data collection, Database references, Derived calculations, Refinement description