Biological Assembly 1  

 3D View: Structure | Electron Density | Ligand Interaction

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

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

Macromolecule Content

• Total Structure Weight: 65.94 kDa 
• Atom Count: 4011 
• Residue Count: 496 
• Unique protein chains: 1

3JRX

Crystal structure of the BC domain of ACC2 in complex with soraphen A

• DOI: 10.2210/pdb3JRX/pdb

• Classification: LIGASE
• Organism(s): Homo sapiens
• Expression System: Escherichia coli BL21
• Mutation(s): No 


• Deposited: 2009-09-09 Released: 2010-01-12 
• Deposition Author(s): Cho, Y.S., Lee, J.I., Shin, D., Kim, H.T., Lee, T.G., Heo, Y.S.

---

Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.50 Å
• R-Value Free: 0.266 
• R-Value Work: 0.221 
• R-Value Observed: 0.221 

Literature

Molecular mechanism for the regulation of human ACC2 through phosphorylation by AMPK.

Cho, Y.S., Lee, J.I., Shin, D., Kim, H.T., Jung, H.Y., Lee, T.G., Kang, L.W., Ahn, Y.J., Cho, H.S., Heo, Y.S.

(2010) Biochem Biophys Res Commun 391: 187-192

• PubMed: 19900410 
• DOI: 10.1016/j.bbrc.2009.11.029
• Primary Citation of Related Structures:  
  3JRW, 3JRX


• PubMed Abstract: 
  

Acetyl-CoA carboxylases (ACCs) have been highlighted as therapeutic targets for obesity and diabetes, as they play crucial roles in fatty acid metabolism. ACC activity is regulated through the short-term mechanism of inactivation by reversible phosphorylation. Here, we report the crystal structures of the biotin carboxylase (BC) domain of human ACC2 phosphorylated by AMP-activated protein kinase (AMPK). The phosphorylated Ser222 binds to the putative dimer interface of BC, disrupting polymerization and providing the molecular mechanism of inactivation by AMPK. We also determined the structure of the human BC domain in complex with soraphen A, a macrocyclic polyketide natural product. This structure shows that the compound binds to the binding site of phosphorylated Ser222, implying that its inhibition mechanism is the same as that of phosphorylation by AMPK.

---

Organizational Affiliation: 

R&D Center, CrystalGenomics, Inc., Seoul 138-739, Republic of Korea.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Acetyl-CoA carboxylase 2	A	587	Homo sapiens	Mutation(s): 0  Gene Names: ACACB, ACC2, ACCB EC: 6.4.1.2 (PDB Primary Data), 6.3.4.14 (PDB Primary Data)
Find proteins for O00763 (Homo sapiens) Explore O00763  Go to UniProtKB:  O00763
NIH Common Fund Data Resources
PHAROS  O00763 GTEx  ENSG00000076555

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
S1A	A	SORAPHEN A C29 H44 O8 WPMGNXPRKGXGBO-OFQQMTDKSA-N

External Ligand Annotations
ID	Binding Affinity (Sequence Identity %)
S1A	Kd :  1   nM  PDBBind
S1A	Kd:  1   nM  Binding MOAD

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.50 Å
• R-Value Free: 0.266 
• R-Value Work: 0.221 
• R-Value Observed: 0.221 
• Space Group: P 3₂ 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 74.744	α = 90
b = 74.744	β = 90
c = 179.414	γ = 120

Software Package:

Software Name	Purpose
HKL-2000	data collection
CNS	refinement
HKL-2000	data reduction
HKL-2000	data scaling
CNS	phasing

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2009-09-09 
• Released Date: 2010-01-12 
Deposition Author(s): Cho, Y.S., Lee, J.I., Shin, D., Kim, H.T., Lee, T.G., Heo, Y.S.

Revision History 

• Version 1.0: 2010-01-12
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance