Biological Assembly 1  

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

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

Biological assembly 1 assigned by authors.

Biological Assembly 2  

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

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

Biological assembly 2 assigned by authors.

Biological Assembly 3  

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

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

Biological assembly 3 assigned by authors.

Biological Assembly 4  

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

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

Biological assembly 4 assigned by authors.

Macromolecule Content

• Total Structure Weight: 138.22 kDa 
• Atom Count: 7720 
• Modelled Residue Count: 1003 
• Deposited Residue Count: 1232 
• Unique protein chains: 1

5F2Z

Crystal structure of membrane associated PatA from Mycobacterium smegmatis in complex with palmitate - P21 space group

• PDB DOI: 10.2210/pdb5F2Z/pdb

• Classification: TRANSFERASE
• Organism(s): Mycolicibacterium smegmatis MC2 155
• Expression System: Mycolicibacterium smegmatis MC2 155
• Mutation(s): No 


• Deposited: 2015-12-02 Released: 2016-03-09 
• Deposition Author(s): Albesa-Jove, D., Svetlikova, Z., Carreras-Gonzalez, A., Tersa, M., Sancho-Vaello, E., Cifuente, J.O., Mikusova, K., Guerin, M.E.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.90 Å
• R-Value Free: 0.274 
• R-Value Work: 0.239 
• R-Value Observed: 0.241 

Literature

Structural basis for selective recognition of acyl chains by the membrane-associated acyltransferase PatA.

Albesa-Jove, D., Svetlikova, Z., Tersa, M., Sancho-Vaello, E., Carreras-Gonzalez, A., Bonnet, P., Arrasate, P., Eguskiza, A., Angala, S.K., Cifuente, J.O., Kordulakova, J., Jackson, M., Mikusova, K., Guerin, M.E.

(2016) Nat Commun 7: 10906-10906

• PubMed: 26965057 
• DOI: 10.1038/ncomms10906
• Primary Citation of Related Structures:  
  5F2T, 5F2Z, 5F31, 5F34


• PubMed Abstract: 
  

The biosynthesis of phospholipids and glycolipids are critical pathways for virtually all cell membranes. PatA is an essential membrane associated acyltransferase involved in the biosynthesis of mycobacterial phosphatidyl-myo-inositol mannosides (PIMs). The enzyme transfers a palmitoyl moiety from palmitoyl-CoA to the 6-position of the mannose ring linked to 2-position of inositol in PIM1/PIM2. We report here the crystal structures of PatA from Mycobacterium smegmatis in the presence of its naturally occurring acyl donor palmitate and a nonhydrolyzable palmitoyl-CoA analog. The structures reveal an α/β architecture, with the acyl chain deeply buried into a hydrophobic pocket that runs perpendicular to a long groove where the active site is located. Enzyme catalysis is mediated by an unprecedented charge relay system, which markedly diverges from the canonical HX4D motif. Our studies establish the mechanistic basis of substrate/membrane recognition and catalysis for an important family of acyltransferases, providing exciting possibilities for inhibitor design.

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Organizational Affiliation: 

Structural Biology Unit, CIC bioGUNE, Bizkaia Technology Park, 48160 Derio, Spain.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Phosphatidylinositol mannoside acyltransferase	A, B, C, D	308	Mycolicibacterium smegmatis MC2 155	Mutation(s): 0  Gene Names: MSMEG_2934, MSMEI_2860, patA EC: 2.3.1 (PDB Primary Data), 2.3.1.265 (UniProt)
UniProt
Find proteins for A0QWG5 (Mycolicibacterium smegmatis (strain ATCC 700084 / mc(2)155)) Explore A0QWG5  Go to UniProtKB:  A0QWG5

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
PLM	E [auth A], F [auth B], G [auth C], H [auth D]	PALMITIC ACID C16 H32 O2 IPCSVZSSVZVIGE-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.90 Å
• R-Value Free: 0.274 
• R-Value Work: 0.239 
• R-Value Observed: 0.241 
• Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 70.83	α = 90
b = 84.48	β = 110.78
c = 98.8	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
XDS	data reduction
XSCALE	data scaling
PHASER	phasing

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2015-12-02 
• Released Date: 2016-03-09 
Deposition Author(s): Albesa-Jove, D., Svetlikova, Z., Carreras-Gonzalez, A., Tersa, M., Sancho-Vaello, E., Cifuente, J.O., Mikusova, K., Guerin, M.E.

Revision History  

• Version 1.0: 2016-03-09
  Type: Initial release
  
• Version 1.1: 2016-03-23
  Changes: Database references