Biological Assembly 1  

 3D View: Structure | 1D-3D View | Electron Density | Validation Report

Global Symmetry: Dihedral - D3  (3D View)
Global Stoichiometry: Homo 6-mer - A6 

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

Macromolecule Content

• Total Structure Weight: 229.50 kDa 
• Atom Count: 14630 
• Modelled Residue Count: 1972 
• Deposited Residue Count: 2186 
• Unique protein chains: 1

4RCN

Structure and function of a single-chain, multi-domain long-chain acyl-coa carboxylase

• PDB DOI: 10.2210/pdb4RCN/pdb

• Classification: LIGASE
• Organism(s): Mycobacterium avium subsp. paratuberculosis K-10
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2014-09-16 Released: 2014-11-05 
• Deposition Author(s): Tran, T.H., Tong, L.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 3.01 Å
• R-Value Free: 0.262 
• R-Value Work: 0.209 
• R-Value Observed: 0.209 

Literature

Structure and function of a single-chain, multi-domain long-chain acyl-CoA carboxylase.

Tran, T.H., Hsiao, Y.S., Jo, J., Chou, C.Y., Dietrich, L.E., Walz, T., Tong, L.

(2015) Nature 518: 120-124

• PubMed: 25383525 
• DOI: 10.1038/nature13912
• Primary Citation of Related Structures:  
  4RCN


• PubMed Abstract: 
  

Biotin-dependent carboxylases are widely distributed in nature and have important functions in the metabolism of fatty acids, amino acids, carbohydrates, cholesterol and other compounds. Defective mutations in several of these enzymes have been linked to serious metabolic diseases in humans, and acetyl-CoA carboxylase is a target for drug discovery in the treatment of diabetes, cancer and other diseases. Here we report the identification and biochemical, structural and functional characterizations of a novel single-chain (120 kDa), multi-domain biotin-dependent carboxylase in bacteria. It has preference for long-chain acyl-CoA substrates, although it is also active towards short-chain and medium-chain acyl-CoAs, and we have named it long-chain acyl-CoA carboxylase. The holoenzyme is a homo-hexamer with molecular mass of 720 kDa. The 3.0 Å crystal structure of the long-chain acyl-CoA carboxylase holoenzyme from Mycobacterium avium subspecies paratuberculosis revealed an architecture that is strikingly different from those of related biotin-dependent carboxylases. In addition, the domains of each monomer have no direct contact with each other. They are instead extensively swapped in the holoenzyme, such that one cycle of catalysis involves the participation of four monomers. Functional studies in Pseudomonas aeruginosa suggest that the enzyme is involved in the utilization of selected carbon and nitrogen sources.

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Organizational Affiliation: 

Department of Biological Sciences, Columbia University, New York, New York 10027, USA.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
long-chain acyl-CoA carboxylase	A, B	1093	Mycobacterium avium subsp. paratuberculosis K-10	Mutation(s): 0  Gene Names: MAP_2873c EC: 6.4.1.2
UniProt
Find proteins for Q73VY8 (Mycolicibacterium paratuberculosis (strain ATCC BAA-968 / K-10)) Explore Q73VY8  Go to UniProtKB:  Q73VY8

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 3.01 Å
• R-Value Free: 0.262 
• R-Value Work: 0.209 
• R-Value Observed: 0.209 
• Space Group: P 2₁ 3

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 220.88	α = 90
b = 220.88	β = 90
c = 220.88	γ = 90

Software Package:

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

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2014-09-16 
• Released Date: 2014-11-05 
Deposition Author(s): Tran, T.H., Tong, L.

Revision History  

• Version 1.0: 2014-11-05
  Type: Initial release
  
• Version 1.1: 2014-12-03
  Changes: Database references
• Version 1.2: 2015-03-11
  Changes: Database references