4Q0G | pdb_00004q0g

Crystal structure of beta subunit of acyl-CoA carboxylase AccD1 from Mycobacterium tuberculosis

• PDB DOI: https://doi.org/10.2210/pdb4Q0G/pdb

• Classification: LIGASE
• Organism(s): Mycobacterium tuberculosis
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2014-04-02 Released: 2016-04-20 
• Deposition Author(s): Bie, H.Y., Yin, J., James, M.N.G., TB Structural Genomics Consortium (TBSGC)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.31 Å
• R-Value Free: 
  0.213 (Depositor), 0.201 (DCC) 
• R-Value Work: 
  0.189 (Depositor), 0.181 (DCC) 
• R-Value Observed: 
  0.190 (Depositor) 

Starting Model: experimental

Literature

Crystal structure of Beta subunit of acyl-CoA carboxylase AccD1 from Mycobacterium tuberculosis

Bie, H.Y., Yin, J., James, M.N.G., TB Structural Genomics Consortium (TBSGC)

To be published.

Biological Assembly 1  

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

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

Macromolecule Content 

• Total Structure Weight: 170.9 kDa 
• Atom Count: 12,306 
• Modeled Residue Count: 1,544 
• Deposited Residue Count: 1,587 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Probable acetyl-/propionyl-CoA carboxylase (Beta subunit) AccD1	A, B, C	529	Mycobacterium tuberculosis	Mutation(s): 0  Gene Names: pccB-3, accD1, MT2577, Rv2502c EC: 6.4.1.3 (PDB Primary Data), 2.1.3 (UniProt)
UniProt
Find proteins for I6YDK7 (Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv)) Explore I6YDK7  Go to UniProtKB:  I6YDK7

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
GOL	D [auth A], E [auth C], F [auth C], G [auth C]	GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.31 Å
• R-Value Free:  0.213 (Depositor), 0.201 (DCC) 
• R-Value Work:  0.189 (Depositor), 0.181 (DCC) 
• R-Value Observed: 0.190 (Depositor) 

Space Group: C 2 2 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 142.571	α = 90
b = 221.253	β = 90
c = 167.835	γ = 90

Software Package:

Software Name	Purpose
MxDC	data collection
PHASER	phasing
REFMAC	refinement
HKL-2000	data reduction
HKL-2000	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2016-04-20 
Deposition Author(s): Bie, H.Y., Yin, J., James, M.N.G., TB Structural Genomics Consortium (TBSGC)

Revision History  

• Version 1.0: 2016-04-20
  Type: Initial release
  
• Version 1.1: 2023-09-20
  Changes: Data collection, Database references, Derived calculations, Refinement description