9G07 | pdb_00009g07

The structure of Candida albicans phosphoglucose isomerase in complex with a fragment

• PDB DOI: https://doi.org/10.2210/pdb9G07/pdb

• Classification: ISOMERASE
• Organism(s): Candida albicans
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2024-07-07 Released: 2025-07-16 
• Deposition Author(s): Yan, K.
• Funding Organization(s): Medical Research Council (MRC, United Kingdom), Wellcome Trust

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.66 Å
• R-Value Free: 
  0.185 (Depositor), 0.197 (DCC) 
• R-Value Work: 
  0.160 (Depositor), 0.172 (DCC) 
• R-Value Observed: 
  0.161 (Depositor) 

Starting Model: experimental

Literature

Using a fragment-based approach to explore starting points for chemical validation of antimicrobial targets

Yan, K., Stanley, M., Raimi, O.G., Kowalski, B., Gurvic, D., Grillenberger, S., Chen, X., Ferenbach, A.T., Dorfmueller, H., van Aalten, D.M.F.

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)

Macromolecule Content 

• Total Structure Weight: 62.09 kDa 
• Atom Count: 4,798 
• Modeled Residue Count: 551 
• Deposited Residue Count: 555 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Glucose-6-phosphate isomerase	A	555	Candida albicans	Mutation(s): 0  Gene Names: PGI1, CAALFM_CR06340CA, CaO19.11369, CaO19.3888 EC: 5.3.1.9
UniProt
Find proteins for P83780 (Candida albicans (strain SC5314 / ATCC MYA-2876)) Explore P83780  Go to UniProtKB:  P83780

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
PA5	C [auth A]	5-PHOSPHOARABINONIC ACID C5 H11 O9 P HNECGPFIYSOYHF-JJYYJPOSSA-N
A1IHU (Subject of Investigation/LOI)	B [auth A]	4-bromanyl-2-methyl-pyrazol-3-amine C4 H6 Br N3 ODFDZOQJRPDQDF-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.66 Å
• R-Value Free:  0.185 (Depositor), 0.197 (DCC) 
• R-Value Work:  0.160 (Depositor), 0.172 (DCC) 
• R-Value Observed: 0.161 (Depositor) 

Space Group: P 2 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 68.1	α = 90
b = 87.359	β = 90
c = 101.309	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
XDS	data reduction
Aimless	data scaling
MOLREP	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2025-07-16 
Deposition Author(s): Yan, K.

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Funding Organization	Location	Grant Number
Medical Research Council (MRC, United Kingdom)	United Kingdom	MR/V001094/1
Wellcome Trust	United Kingdom	200208

Revision History  

• Version 1.0: 2025-07-16
  Type: Initial release