9NZL | pdb_00009nzl

Crystal structure of Yck2 with DJS-02-24-06

• PDB DOI: https://doi.org/10.2210/pdb9NZL/pdb

• Classification: TRANSFERASE/INHIBITOR
• Organism(s): Candida albicans
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2025-04-01 Released: 2025-10-08 
• Deposition Author(s): Stogios, P.J., Shirley, D., Cowen, L.E., Willson, T., Savchenko, A., Joachimiak, A., Satchell, K.J.F., Center for Structural Biology of Infectious Diseases (CSBID)
• Funding Organization(s): National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.92 Å
• R-Value Free: 
  0.200 (Depositor), 0.200 (DCC) 
• R-Value Work: 
  0.158 (Depositor), 0.159 (DCC) 
• R-Value Observed: 
  0.161 (Depositor) 

Starting Model: experimental

Literature

Crystal structure of Yck2 with DJS-02-24-06

Stogios, P.J.

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

Macromolecule Content 

• Total Structure Weight: 35.91 kDa 
• Atom Count: 2,904 
• Modeled Residue Count: 309 
• Deposited Residue Count: 309 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
non-specific serine/threonine protein kinase	A	309	Candida albicans	Mutation(s): 0  Gene Names: FOB64_000203 EC: 2.7.11.1
UniProt
Find proteins for A0A8H6C375 (Candida albicans) Explore A0A8H6C375  Go to UniProtKB:  A0A8H6C375

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
A1B7R (Subject of Investigation/LOI)	C [auth A]	(4M)-4-[3-(5-methylpyridin-2-yl)-1H-pyrazol-4-yl]quinoline C18 H14 N4 ISYGNOQTBQSKET-UHFFFAOYSA-N
SO4	D [auth A], E [auth A]	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L
CL	B [auth A]	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.92 Å
• R-Value Free:  0.200 (Depositor), 0.200 (DCC) 
• R-Value Work:  0.158 (Depositor), 0.159 (DCC) 
• R-Value Observed: 0.161 (Depositor) 

Space Group: H 3

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 91.824	α = 90
b = 91.824	β = 90
c = 118.714	γ = 120

Software Package:

Software Name	Purpose
PHENIX	refinement
CrysalisPro	data reduction
CrysalisPro	data scaling
PHASER	phasing
PHENIX	model building
DM	model building

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2025-10-08 
Deposition Author(s): Stogios, P.J., Shirley, D., Cowen, L.E., Willson, T., Savchenko, A., Joachimiak, A., Satchell, K.J.F., Center for Structural Biology of Infectious Diseases (CSBID)

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Funding Organization	Location	Grant Number
National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)	United States	--

Revision History  

• Version 1.0: 2025-10-08
  Type: Initial release