7Z1F

Crystal structure of GSK3b in complex with CX-4945

• PDB DOI: https://doi.org/10.2210/pdb7Z1F/pdb

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


• Deposited: 2022-02-24 Released: 2023-03-08 
• Deposition Author(s): Grygier, P., Pustelny, K., Dubin, G., Czarna, A.
• Funding Organization(s): Polish National Science Centre, National Center for Research and Development (Poland)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 3.00 Å
• R-Value Free: 0.249 
• R-Value Work: 0.223 
• R-Value Observed: 0.224 

Literature

Crystal structure of phosphorylated (Tyr216) GSK3b kinase in complex with CX-4945

Grygier, P., Pustelny, K., Golik, P., Popowicz, G., Dubin, G., Czarna, A.

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: 84.29 kDa 
• Atom Count: 5,209 
• Modelled Residue Count: 678 
• Deposited Residue Count: 728 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Glycogen synthase kinase-3 beta	A, B	364	Homo sapiens	Mutation(s): 0  Gene Names: GSK3B EC: 2.7.11.26 (PDB Primary Data), 2.7.11.1 (PDB Primary Data)
UniProt & NIH Common Fund Data Resources
Find proteins for P49841 (Homo sapiens) Explore P49841  Go to UniProtKB:  P49841
PHAROS:  P49841 GTEx:  ENSG00000082701

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
3NG (Subject of Investigation/LOI)	C [auth A], G [auth B]	5-[(3-chlorophenyl)amino]benzo[c][2,6]naphthyridine-8-carboxylic acid C19 H12 Cl N3 O2 MUOKSQABCJCOPU-UHFFFAOYSA-N
YT3	E [auth A], F [auth A], H [auth B], I [auth B]	YTTRIUM (III) ION Y GRTBAGCGDOYUBE-UHFFFAOYSA-N
IMD	D [auth A]	IMIDAZOLE C3 H5 N2 RAXXELZNTBOGNW-UHFFFAOYSA-O

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
PTR	A, B	L-PEPTIDE LINKING	C9 H12 N O6 P		TYR

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 3.00 Å
• R-Value Free: 0.249 
• R-Value Work: 0.223 
• R-Value Observed: 0.224 
• Space Group: P 3₁ 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 86.001	α = 90
b = 86.001	β = 90
c = 237.735	γ = 120

Software Package:

Software Name	Purpose
PHENIX	refinement
Aimless	data scaling
PDB_EXTRACT	data extraction
XDS	data reduction
Coot	model building
PHASER	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2023-03-08 
Deposition Author(s): Grygier, P., Pustelny, K., Dubin, G., Czarna, A.

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Funding Organization	Location	Grant Number
Polish National Science Centre	Poland	2019/34/E/NZ1/00467
National Center for Research and Development (Poland)	Poland	PPN/PPO/2018/1/00046

Revision History  

• Version 1.0: 2023-03-08
  Type: Initial release
  
• Version 1.1: 2024-02-07
  Changes: Data collection, Refinement description