8R2R

N-terminal domain of the Mycobacterium tuberculosis fatty acyl CoA synthetase, FadD5

• PDB DOI: https://doi.org/10.2210/pdb8R2R/pdb

• Classification: LIGASE
• Organism(s): Mycobacterium tuberculosis H37Rv
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2023-11-07 Released: 2024-11-13 
• Deposition Author(s): Rahman, M.A., Dalwani, S., Venkatesan, R.
• Funding Organization(s): H2020 Marie Curie Actions of the European Commission, Academy of Finland, Other private, Other government, Jane and Aatos Erkko Foundation

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.47 Å
• R-Value Free: 0.222 
• R-Value Work: 0.198 
• R-Value Observed: 0.199 

Starting Model: experimental

Literature

Structural enzymological studies of the long chain fatty acyl-CoA synthetase FadD5 from the mce1 operon of Mycobacterium tuberculosis

Rahman, M.A., Dalwani, S., Venkatesan, R.

To be published.

Biological Assembly 1  

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

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

Biological Assembly Evidence: light scattering

Macromolecule Content

• Total Structure Weight: 101.96 kDa 
• Atom Count: 6,255 
• Modelled Residue Count: 823 
• Deposited Residue Count: 944 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Probable fatty-acid-CoA ligase FadD5 (Fatty-acid-CoA synthetase) (Fatty-acid-CoA synthase)	A, B	472	Mycobacterium tuberculosis H37Rv	Mutation(s): 0  Gene Names: fadD5, Rv0166
UniProt
Find proteins for O07411 (Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv)) Explore O07411  Go to UniProtKB:  O07411

Small Molecules

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

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.47 Å
• R-Value Free: 0.222 
• R-Value Work: 0.198 
• R-Value Observed: 0.199 
• Space Group: P 4₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 121.671	α = 90
b = 121.671	β = 90
c = 249.874	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
Aimless	data scaling
PHASER	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2024-11-13 
Deposition Author(s): Rahman, M.A., Dalwani, S., Venkatesan, R.

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Funding Organization	Location	Grant Number
H2020 Marie Curie Actions of the European Commission	European Union	713606
Academy of Finland	Finland	332967
Other private		Sigrid Juselius Foundation
Other private		Tampere Tuberculosis Foundation
Other government		University of Oulu
Jane and Aatos Erkko Foundation	Finland	--

Revision History  

• Version 1.0: 2024-11-13
  Type: Initial release