7OYL | pdb_00007oyl

Phosphoglucose isomerase of Aspergillus fumigatus in complexed with Glucose-6-phosphate


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.78 Å
  • R-Value Free: 
    0.180 (Depositor), 0.189 (DCC) 
  • R-Value Work: 
    0.154 (Depositor), 0.166 (DCC) 
  • R-Value Observed: 
    0.155 (Depositor) 

Starting Model: experimental
View more details

wwPDB Validation 3D Report Full Report

Validation slider image for 7OYL

Ligand Structure Quality Assessment 


This is version 1.2 of the entry. See complete history

Literature

Phosphoglucose Isomerase Is Important for Aspergillus fumigatus Cell Wall Biogenesis.

Zhou, Y.Yan, K.Qin, Q.Raimi, O.G.Du, C.Wang, B.Ahamefule, C.S.Kowalski, B.Jin, C.van Aalten, D.M.F.Fang, W.

(2022) mBio 13: e0142622-e0142622

  • DOI: https://doi.org/10.1128/mbio.01426-22
  • Primary Citation Related Structures: 
    7OYL, 7U34

  • PubMed Abstract: 

    Aspergillus fumigatus is a devastating opportunistic fungal pathogen causing hundreds of thousands of deaths every year. Phosphoglucose isomerase (PGI) is a glycolytic enzyme that converts glucose-6-phosphate to fructose-6-phosphate, a key precursor of fungal cell wall biosynthesis. Here, we demonstrate that the growth of A. fumigatus is repressed by the deletion of pgi , which can be rescued by glucose and fructose supplementation in a 1:10 ratio. Even under these optimized growth conditions, the Δ pgi mutant exhibits severe cell wall defects, retarded development, and attenuated virulence in Caenorhabditis elegans and Galleria mellonella infection models. To facilitate exploitation of A. fumigatus PGI as an antifungal target, we determined its crystal structure, revealing potential avenues for developing inhibitors, which could potentially be used as adjunctive therapy in combination with other systemic antifungals. IMPORTANCE Aspergillus fumigatus is an opportunistic fungal pathogen causing deadly infections in immunocompromised patients. Enzymes essential for fungal survival and cell wall biosynthesis are considered potential drug targets against A. fumigatus. PGI catalyzes the second step of the glycolysis pathway, linking glycolysis and the pentose phosphate pathway. As such, PGI has been widely considered as a target for metabolic regulation and therefore a therapeutic target against hypoxia-related diseases. Our study here reveals that PGI is important for A. fumigatus survival and exhibit pleiotropic functions, including development, cell wall glucan biosynthesis, and virulence. We also solved the crystal structure of PGI, thus providing the genetic and structural groundwork for the exploitation of PGI as a potential antifungal target.


  • Organizational Affiliation
    • Guangxi Biological Sciences and Biotechnology Center, Guangxi Academy of Sciencesgrid.418329.5, Nanning, Guangxi, China.

Macromolecule Content 

  • Total Structure Weight: 62.67 kDa 
  • Atom Count: 4,981 
  • Modeled Residue Count: 557 
  • Deposited Residue Count: 558 
  • Unique protein chains: 1

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
Glucose-6-phosphate isomerase558Aspergillus fumigatusMutation(s): 0 
Gene Names: CDV57_05145
EC: 5.3.1.9

Small Molecules

Ligands 4 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
BG6
(Subject of Investigation/LOI)

Query on BG6



Download:Ideal Coordinates CCD File
J [auth A]6-O-phosphono-beta-D-glucopyranose
C6 H13 O9 P
NBSCHQHZLSJFNQ-VFUOTHLCSA-N
GOL

Query on GOL



Download:Ideal Coordinates CCD File
D [auth A],
E [auth A],
F [auth A],
G [auth A],
H [auth A]
GLYCEROL
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
CL

Query on CL



Download:Ideal Coordinates CCD File
B [auth A],
C [auth A]
CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M
NA

Query on NA



Download:Ideal Coordinates CCD File
I [auth A]SODIUM ION
Na
FKNQFGJONOIPTF-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.78 Å
  • R-Value Free:  0.180 (Depositor), 0.189 (DCC) 
  • R-Value Work:  0.154 (Depositor), 0.166 (DCC) 
  • R-Value Observed: 0.155 (Depositor) 
Space Group: P 43 21 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 85.251α = 90
b = 85.251β = 90
c = 232.503γ = 90
Software Package:
Software NamePurpose
REFMACrefinement
XDSdata reduction
MOLREPphasing
PDB_EXTRACTdata extraction
XDSdata scaling

Structure Validation

View Full Validation Report



Ligand Structure Quality Assessment 


Entry History 

& Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Medical Research Council (MRC, United Kingdom)United KingdomV001094

Revision History  (Full details and data files)

  • Version 1.0: 2022-07-13
    Type: Initial release
  • Version 1.1: 2023-07-26
    Changes: Database references
  • Version 1.2: 2024-01-31
    Changes: Data collection, Refinement description