4P7E

Triazolopyridine compounds as selective JAK1 inhibitors: from hit identification to GLPG0634

• PDB DOI: https://doi.org/10.2210/pdb4P7E/pdb

• Classification: TRANSFERASE
• Organism(s): Homo sapiens
• Expression System: Spodoptera frugiperda
• Mutation(s): Yes 


• Deposited: 2014-03-27 Released: 2014-11-19 
• Deposition Author(s): Menet, C.C.J., Fletcher, S., Van Lommen, G., Geney, R., Blanc, J., Smits, K., Jouannigot, N., van der Aar, E.M., Clement-Lacroix, P., Lepescheux, L., Galien, R., Vayssiere, B., Nelles, L., Christophe, T., Brys, R., Uhring, M., Ciesielski, F., Van Rompaey, L.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.40 Å
• R-Value Free: 
  0.267 (Depositor), 0.270 (DCC) 
• R-Value Work: 
  0.205 (Depositor), 0.200 (DCC) 
• R-Value Observed: 
  0.208 (Depositor) 

Starting Model: experimental

Literature

Triazolopyridines as Selective JAK1 Inhibitors: From Hit Identification to GLPG0634.

Menet, C.J., Fletcher, S.R., Van Lommen, G., Geney, R., Blanc, J., Smits, K., Jouannigot, N., Deprez, P., van der Aar, E.M., Clement-Lacroix, P., Lepescheux, L., Galien, R., Vayssiere, B., Nelles, L., Christophe, T., Brys, R., Uhring, M., Ciesielski, F., Van Rompaey, L.

(2014) J Med Chem 57: 9323-9342

• PubMed: 25369270 
• DOI: https://doi.org/10.1021/jm501262q
• Primary Citation of Related Structures:  
  4P7E


• PubMed Abstract: 
  

  Janus kinases (JAK1, JAK2, JAK3, and TYK2) are involved in the signaling of multiple cytokines important in cellular function. Blockade of the JAK-STAT pathway with a small molecule has been shown to provide therapeutic immunomodulation. Having identified JAK1 as a possible new target for arthritis at Galapagos, the compound library was screened against JAK1, resulting in the identification of a triazolopyridine-based series of inhibitors represented by 3. Optimization within this chemical series led to identification of GLPG0634 (65, filgotinib), a selective JAK1 inhibitor currently in phase 2B development for RA and phase 2A development for Crohn's disease (CD).

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Organizational Affiliation: 

Galapagos NV , Generaal de Wittelaan L11A3, 2800 Mechelen, Belgium.

Biological Assembly 1  

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

Biological assembly 1 generated by PISA (software)

Biological Assembly 2  

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

Biological assembly 2 generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 70.04 kDa 
• Atom Count: 5,052 
• Modelled Residue Count: 570 
• Deposited Residue Count: 586 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Tyrosine-protein kinase JAK2	A, B	293	Homo sapiens	Mutation(s): 1  Gene Names: JAK2 EC: 2.7.10.2
UniProt & NIH Common Fund Data Resources
Find proteins for O60674 (Homo sapiens) Explore O60674  Go to UniProtKB:  O60674
PHAROS:  O60674 GTEx:  ENSG00000096968

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
2HB	C [auth A], D [auth B]	N-(5-{4-[(1,1-dioxidothiomorpholin-4-yl)methyl]phenyl}[1,2,4]triazolo[1,5-a]pyridin-2-yl)cyclopropanecarboxamide C21 H23 N5 O3 S RIJLVEAXPNLDTC-UHFFFAOYSA-N

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

Binding Affinity Annotations
ID	Source	Binding Affinity
2HB	BindingDB:  4P7E	IC50: min: 25, max: 1.75e+4 (nM) from 24 assay(s)

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.40 Å
• R-Value Free:  0.267 (Depositor), 0.270 (DCC) 
• R-Value Work:  0.205 (Depositor), 0.200 (DCC) 
• R-Value Observed: 0.208 (Depositor) 

Space Group: P 4₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 111.39	α = 90
b = 111.39	β = 90
c = 71.08	γ = 90

Software Package:

Software Name	Purpose
iMOSFLM	data reduction
SCALA	data scaling
PDB_EXTRACT	data extraction
PHASER	phasing
REFMAC	refinement
MOSFLM	data reduction

Structure Validation

Entry History 

Deposition Data

• Released Date: 2014-11-19 
Deposition Author(s): Menet, C.C.J., Fletcher, S., Van Lommen, G., Geney, R., Blanc, J., Smits, K., Jouannigot, N., van der Aar, E.M., Clement-Lacroix, P., Lepescheux, L., Galien, R., Vayssiere, B., Nelles, L., Christophe, T., Brys, R., Uhring, M., Ciesielski, F., Van Rompaey, L.

Revision History  

• Version 1.0: 2014-11-19
  Type: Initial release
  
• Version 1.1: 2014-12-10
  Changes: Database references
• Version 2.0: 2019-08-21
  Changes: Atomic model, Data collection, Derived calculations
• Version 2.1: 2023-12-20
  Changes: Data collection, Database references, Refinement description
• Version 2.2: 2024-10-09
  Changes: Structure summary