3ZON

Human TYK2 pseudokinase domain bound to a kinase inhibitor

• PDB DOI: https://doi.org/10.2210/pdb3ZON/pdb

• Classification: TRANSFERASE
• Organism(s): Homo sapiens
• Expression System: Spodoptera frugiperda
• Mutation(s): No 


• Deposited: 2013-02-22 Released: 2013-04-10 
• Deposition Author(s): Elkins, J.M., Wang, J., Krojer, T., Savitsky, P., Chalk, R., Daga, N., Salah, E., Berridge, G., Picaud, S., von Delft, F., Bountra, C., Edwards, A., Knapp, S.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.15 Å
• R-Value Free: 
  0.268 (Depositor), 0.270 (DCC) 
• R-Value Work: 
  0.214 (Depositor), 0.220 (DCC) 
• R-Value Observed: 
  0.217 (Depositor) 

Starting Model: experimental

Literature

Human Tyk2 Pseudokinase Domain Bound to a Kinase Inhibitor

Elkins, J.M., Wang, J., Krojer, T., Savitsky, P., Chalk, R., Daga, N., Salah, E., Berridge, G., Picaud, S., von Delft, F., Bountra, C., Edwards, A., Knapp, S.

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)

Macromolecule Content

• Total Structure Weight: 37.67 kDa 
• Atom Count: 2,185 
• Modelled Residue Count: 261 
• Deposited Residue Count: 335 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
NON-RECEPTOR TYROSINE-PROTEIN KINASE TYK2	A	335	Homo sapiens	Mutation(s): 0  EC: 2.7.11.1 (PDB Primary Data), 2.7.10.2 (PDB Primary Data)
UniProt & NIH Common Fund Data Resources
Find proteins for P29597 (Homo sapiens) Explore P29597  Go to UniProtKB:  P29597
PHAROS:  P29597 GTEx:  ENSG00000105397

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
IK1	B [auth A]	5-PHENYL-2-UREIDOTHIOPHENE-3-CARBOXAMIDE C12 H11 N3 O2 S PSVUSJKZJQMCSP-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.15 Å
• R-Value Free:  0.268 (Depositor), 0.270 (DCC) 
• R-Value Work:  0.214 (Depositor), 0.220 (DCC) 
• R-Value Observed: 0.217 (Depositor) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 47.81	α = 90
b = 83.72	β = 90
c = 91.22	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: 2013-04-10 
Deposition Author(s): Elkins, J.M., Wang, J., Krojer, T., Savitsky, P., Chalk, R., Daga, N., Salah, E., Berridge, G., Picaud, S., von Delft, F., Bountra, C., Edwards, A., Knapp, S.

Revision History  

• Version 1.0: 2013-04-10
  Type: Initial release
  
• Version 1.1: 2018-01-24
  Changes: Database references
• Version 1.2: 2023-12-20
  Changes: Data collection, Database references, Derived calculations, Other, Refinement description