7P5O

Crystal structure of Aspergillus fumigatus phosphoglucomutase in complex with the reaction intermediate

• PDB DOI: https://doi.org/10.2210/pdb7P5O/pdb

• Classification: ISOMERASE
• Organism(s): Aspergillus fumigatus
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2021-07-14 Released: 2022-07-27 
• Deposition Author(s): Raimi, O.G., Yan, K., van Aalten, D.M.F.
• Funding Organization(s): Medical Research Council (MRC, United Kingdom)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.48 Å
• R-Value Free: 0.258 
• R-Value Work: 0.201 
• R-Value Observed: 0.204 

Starting Model: experimental

Literature

Targeting an essential step in the biosynthetic pathway of uridine diphosphate glucose in Aspergillus fumigatus

Yan, K., Stanley, M., Kowalski, B., Raimi, O.G., Ferenbach, A.T., Wei, P.Z., Yuan, H., Fang, W., van Aalten, D.M.F.

To be published.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: gel filtration

Biological Assembly 2  

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

Biological assembly 2 assigned by authors.

Macromolecule Content

• Total Structure Weight: 122.69 kDa 
• Atom Count: 9,110 
• Modelled Residue Count: 1,114 
• Deposited Residue Count: 1,120 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Phosphoglucomutase	A, B	560	Aspergillus fumigatus	Mutation(s): 0  Gene Names: CDV57_06471 EC: 5.4.2.2
UniProt
Find proteins for Q4WY53 (Aspergillus fumigatus (strain ATCC MYA-4609 / CBS 101355 / FGSC A1100 / Af293)) Explore Q4WY53  Go to UniProtKB:  Q4WY53

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
G16 (Subject of Investigation/LOI)	C [auth A], E [auth B]	1,6-di-O-phosphono-alpha-D-glucopyranose C6 H13 O12 P2 RWHOZGRAXYWRNX-VFUOTHLCSA-M
MG (Subject of Investigation/LOI)	D [auth A], F [auth B]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.48 Å
• R-Value Free: 0.258 
• R-Value Work: 0.201 
• R-Value Observed: 0.204 
• Space Group: P 2₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 98.57	α = 90
b = 209.61	β = 90
c = 61.2	γ = 90

Software Package:

Software Name	Purpose
MOLREP	phasing
REFMAC	refinement
PDB_EXTRACT	data extraction
autoPROC	data reduction
autoPROC	data scaling

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2022-07-27 
Deposition Author(s): Raimi, O.G., Yan, K., van Aalten, D.M.F.

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Funding Organization	Location	Grant Number
Medical Research Council (MRC, United Kingdom)	United Kingdom	V001094

Revision History  

• Version 1.0: 2022-07-27
  Type: Initial release
  
• Version 1.1: 2024-01-31
  Changes: Data collection, Refinement description