7OJT

Crystal structure of unliganded PatA, a membrane associated acyltransferase from Mycobacterium smegmatis


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.67 Å
  • R-Value Free: 0.290 
  • R-Value Work: 0.268 
  • R-Value Observed: 0.269 

wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

Molecular ruler mechanism and interfacial catalysis of the integral membrane acyltransferase PatA.

Anso, I.Basso, L.G.M.Wang, L.Marina, A.Paez-Perez, E.D.Jager, C.Gavotto, F.Tersa, M.Perrone, S.Contreras, F.X.Prandi, J.Gilleron, M.Linster, C.L.Corzana, F.Lowary, T.L.Trastoy, B.Guerin, M.E.

(2021) Sci Adv 7: eabj4565-eabj4565

  • DOI: https://doi.org/10.1126/sciadv.abj4565
  • Primary Citation of Related Structures:  
    7OJT

  • PubMed Abstract: 

    Glycolipids are prominent components of bacterial membranes that play critical roles not only in maintaining the structural integrity of the cell but also in modulating host-pathogen interactions. PatA is an essential acyltransferase involved in the biosynthesis of phosphatidyl- myo -inositol mannosides (PIMs), key structural elements and virulence factors of Mycobacterium tuberculosis . We demonstrate by electron spin resonance spectroscopy and surface plasmon resonance that PatA is an integral membrane acyltransferase tightly anchored to anionic lipid bilayers, using a two-helix structural motif and electrostatic interactions. PatA dictates the acyl chain composition of the glycolipid by using an acyl chain selectivity “ruler.” We established this by a combination of structural biology, enzymatic activity, and binding measurements on chemically synthesized nonhydrolyzable acyl–coenzyme A (CoA) derivatives. We propose an interfacial catalytic mechanism that allows PatA to acylate hydrophobic PIMs anchored in the inner membrane of mycobacteria, through the use of water-soluble acyl-CoA donors.


  • Organizational Affiliation

    Structural Glycobiology Laboratory, Center for Cooperative Research in Biosciences (CIC bioGUNE), Basque Research and Technology Alliance (BRTA), Bizkaia Technology Park, Building 801A, 48160 Derio, Spain.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Phosphatidylinositol mannoside acyltransferase
A, B, C, D
313Mycolicibacterium smegmatis MC2 155Mutation(s): 0 
Gene Names: MSMEG_2934MSMEI_2860
EC: 2.3.1.265
Membrane Entity: Yes 
UniProt
Find proteins for A0QWG5 (Mycolicibacterium smegmatis (strain ATCC 700084 / mc(2)155))
Explore A0QWG5 
Go to UniProtKB:  A0QWG5
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0QWG5
Sequence Annotations
Expand
  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
GOL
Query on GOL

Download Ideal Coordinates CCD File 
E [auth A]GLYCEROL
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.67 Å
  • R-Value Free: 0.290 
  • R-Value Work: 0.268 
  • R-Value Observed: 0.269 
  • Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 81.31α = 90
b = 92.97β = 90.33
c = 81.09γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
XDSdata reduction
XSCALEdata scaling
PHASERphasing

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2021-10-27
    Type: Initial release
  • Version 1.1: 2021-11-03
    Changes: Data collection, Database references
  • Version 1.2: 2024-01-31
    Changes: Data collection, Refinement description