6QY9 | pdb_00006qy9

Human CSNK2A2 bound to a Pyrrolo[2,3-d]pyrimidinyl inhibitor

• PDB DOI: https://doi.org/10.2210/pdb6QY9/pdb

• Classification: TRANSFERASE
• Organism(s): Homo sapiens
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2019-03-08 Released: 2019-04-17 
• Deposition Author(s): Abdul Azeez, K.R., Sorrell, F.J., Krojer, T., Bountra, C., Edwards, A.M., Arrowsmith, C., Knapp, S., Elkins, J.M.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.50 Å
• R-Value Free: 
  0.165 (Depositor), 0.164 (DCC) 
• R-Value Work: 
  0.125 (Depositor), 0.125 (DCC) 
• R-Value Observed: 
  0.127 (Depositor) 

Starting Model: experimental

Literature

Human CSNK2A2 bound to a Pyrrolo[2,3-d]pyrimidinyl inhibitor

Abdul Azeez, K.R., Elkins, J.M.

To be published.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors and generated by PISA (software)

Biological Assembly Evidence: gel filtration

Macromolecule Content 

• Total Structure Weight: 40.5 kDa 
• Atom Count: 3,072 
• Modeled Residue Count: 329 
• Deposited Residue Count: 336 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Casein kinase II subunit alpha'	A	336	Homo sapiens	Mutation(s): 0  Gene Names: CSNK2A2, CK2A2 EC: 2.7.11.1
UniProt & NIH Common Fund Data Resources
Find proteins for P19784 (Homo sapiens) Explore P19784  Go to UniProtKB:  P19784
PHAROS:  P19784 GTEx:  ENSG00000070770

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
JL2	B [auth A]	3-[3-[2-[(3,4,5-trimethoxyphenyl)amino]pyrrolo[2,3-d]pyrimidin-7-yl]phenyl]propanenitrile C24 H23 N5 O3 KKVZKYOBQGDKIB-UHFFFAOYSA-N
EDO	C [auth A]	1,2-ETHANEDIOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N
CL	D [auth A], E [auth A]	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.50 Å
• R-Value Free:  0.165 (Depositor), 0.164 (DCC) 
• R-Value Work:  0.125 (Depositor), 0.125 (DCC) 
• R-Value Observed: 0.127 (Depositor) 

Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 72.579	α = 90
b = 59.46	β = 93.64
c = 83.08	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
MOSFLM	data reduction
Aimless	data scaling
PHASER	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2019-04-17 
Deposition Author(s): Abdul Azeez, K.R., Sorrell, F.J., Krojer, T., Bountra, C., Edwards, A.M., Arrowsmith, C., Knapp, S., Elkins, J.M.

Revision History  

• Version 1.0: 2019-04-17
  Type: Initial release
  
• Version 1.1: 2019-07-10
  Changes: Data collection
• Version 1.2: 2024-01-24
  Changes: Data collection, Database references, Refinement description