9NZK | pdb_00009nzk

Crystal structure of Yck2 with LY364947

• PDB DOI: https://doi.org/10.2210/pdb9NZK/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: 1.70 Å
• R-Value Free: 
  0.211 (Depositor), 0.211 (DCC) 
• R-Value Work: 
  0.174 (Depositor), 0.174 (DCC) 
• R-Value Observed: 
  0.176 (Depositor) 

Starting Model: experimental

Literature

Crystal structure of Yck2 with LY364947

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: 35.74 kDa 
• Atom Count: 2,849 
• Modeled Residue Count: 306 
• 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 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
PY1 (Subject of Investigation/LOI)	B [auth A]	4-(3-PYRIDIN-2-YL-1H-PYRAZOL-4-YL)QUINOLINE C17 H12 N4 IBCXZJCWDGCXQT-UHFFFAOYSA-N
CL	C [auth A], D [auth A]	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.70 Å
• R-Value Free:  0.211 (Depositor), 0.211 (DCC) 
• R-Value Work:  0.174 (Depositor), 0.174 (DCC) 
• R-Value Observed: 0.176 (Depositor) 

Space Group: H 3

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 91.532	α = 90
b = 91.532	β = 90
c = 118.824	γ = 120

Software Package:

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