5E1E

Human JAK1 kinase in complex with compound 30 at 2.30 Angstroms resolution

• PDB DOI: https://doi.org/10.2210/pdb5E1E/pdb

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


• Deposited: 2015-09-29 Released: 2015-11-25 
• Deposition Author(s): Ferguson, A.D.

---

Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.30 Å
• R-Value Free: 0.268 
• R-Value Work: 0.225 
• R-Value Observed: 0.227 

Literature

Identification of azabenzimidazoles as potent JAK1 selective inhibitors.

Vasbinder, M.M., Alimzhanov, M., Augustin, M., Bebernitz, G., Bell, K., Chuaqui, C., Deegan, T., Ferguson, A.D., Goodwin, K., Huszar, D., Kawatkar, A., Kawatkar, S., Read, J., Shi, J., Steinbacher, S., Steuber, H., Su, Q., Toader, D., Wang, H., Woessner, R., Wu, A., Ye, M., Zinda, M.

(2016) Bioorg Med Chem Lett 26: 60-67

• PubMed: 26614408 
• DOI: https://doi.org/10.1016/j.bmcl.2015.11.031
• Primary Citation of Related Structures:  
  5E1E


• PubMed Abstract: 
  

  We have identified a class of azabenzimidazoles as potent and selective JAK1 inhibitors. Investigations into the SAR are presented along with the structural features required to achieve selectivity for JAK1 versus other JAK family members. An example from the series demonstrated highly selective inhibition of JAK1 versus JAK2 and JAK3, along with inhibition of pSTAT3 in vivo, enabling it to serve as a JAK1 selective tool compound to further probe the biology of JAK1 selective inhibitors.

---

Organizational Affiliation: 

AstraZeneca R&D Boston, Oncology IMED, 35 Gatehouse Drive, Waltham, MA 02451, United States. Electronic address: [e-mail].

Biological Assembly 1  

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

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

Biological Assembly 2  

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

Biological assembly 2 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 67.92 kDa 
• Atom Count: 4,944 
• Modelled Residue Count: 563 
• Deposited Residue Count: 580 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Tyrosine-protein kinase JAK1	A, B	290	Homo sapiens	Mutation(s): 0  Gene Names: JAK1, JAK1A, JAK1B EC: 2.7.10.2
UniProt & NIH Common Fund Data Resources
Find proteins for P23458 (Homo sapiens) Explore P23458  Go to UniProtKB:  P23458
PHAROS:  P23458 GTEx:  ENSG00000162434

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
5JG	D [auth A], E [auth B]	6-chloro-2-(2-fluoro-4,5-dimethoxyphenyl)-N-(piperidin-4-ylmethyl)-3H-imidazo[4,5-b]pyridin-7-amine C20 H23 Cl F N5 O2 IRGAIDAWHGYOKD-UHFFFAOYSA-N
PEG	C [auth A]	DI(HYDROXYETHYL)ETHER C4 H10 O3 MTHSVFCYNBDYFN-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
5JG	BindingDB:  5E1E	IC50: min: 22, max: 39 (nM) from 2 assay(s)

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.30 Å
• R-Value Free: 0.268 
• R-Value Work: 0.225 
• R-Value Observed: 0.227 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 43.095	α = 90
b = 88.708	β = 90
c = 174.928	γ = 90

Software Package:

Software Name	Purpose
BUSTER	refinement
XSCALE	data scaling
XDS	data reduction
MOLREP	phasing
Coot	model building

Structure Validation

Entry History 

Deposition Data

• Released Date: 2015-11-25 
Deposition Author(s): Ferguson, A.D.

Revision History  

• Version 1.0: 2015-11-25
  Type: Initial release
  
• Version 1.1: 2015-12-16
  Changes: Database references
• Version 1.2: 2015-12-30
  Changes: Database references