Biological Assembly 1  

 3D View: Structure | 1D-3D View | Electron Density | Validation Report | Ligand Interaction

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

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

Macromolecule Content

• Total Structure Weight: 35.20 kDa 
• Atom Count: 2626 
• Modelled Residue Count: 274 
• Deposited Residue Count: 295 
• Unique protein chains: 1

3UGC

Structural basis of Jak2 inhibition by the type II inhibtor NVP-BBT594

• PDB DOI: 10.2210/pdb3UGC/pdb

• Classification: Transferase/transferase inhibitor
• Organism(s): Homo sapiens
• Expression System: Spodoptera frugiperda
• Mutation(s): Yes 


• Deposited: 2011-11-02 Released: 2012-05-16 
• Deposition Author(s): Scheufler, C., Tavares, G.A., Manley, P.W., Pissot-Soldermann, C., Kroemer, M.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.34 Å
• R-Value Free: 0.189 
• R-Value Work: 0.176 
• R-Value Observed: 0.177 

Literature

Modulation of activation-loop phosphorylation by JAK inhibitors is binding mode dependent.

Andraos, R., Qian, Z., Bonenfant, D., Rubert, J., Vangrevelinghe, E., Scheufler, C., Marque, F., Regnier, C.H., De Pover, A., Ryckelynck, H., Bhagwat, N., Koppikar, P., Goel, A., Wyder, L., Tavares, G., Baffert, F., Pissot-Soldermann, C., Manley, P.W., Gaul, C., Voshol, H., Levine, R.L., Sellers, W.R., Hofmann, F., Radimerski, T.

(2012) Cancer Discov 2: 512-523

• PubMed: 22684457 
• DOI: 10.1158/2159-8290.CD-11-0324
• Primary Citation of Related Structures:  
  3UGC


• PubMed Abstract: 
  

Janus kinase (JAK) inhibitors are being developed for the treatment of rheumatoid arthritis, psoriasis, myeloproliferative neoplasms, and leukemias. Most of these drugs target the ATP-binding pocket and stabilize the active conformation of the JAK kinases. This type I binding mode can lead to an increase in JAK activation loop phosphorylation, despite blockade of kinase function. Here we report that stabilizing the inactive state via type II inhibition acts in the opposite manner, leading to a loss of activation loop phosphorylation. We used X-ray crystallography to corroborate the binding mode and report for the first time the crystal structure of the JAK2 kinase domain in an inactive conformation. Importantly, JAK inhibitor-induced activation loop phosphorylation requires receptor interaction, as well as intact kinase and pseudokinase domains. Hence, depending on the respective conformation stabilized by a JAK inhibitor, hyperphosphorylation of the activation loop may or may not be elicited.

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Organizational Affiliation: 

Disease Area Oncology, Novartis Institutes for BioMedical Research, Basel, Switzerland.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Tyrosine-protein kinase JAK2	A	295	Homo sapiens	Mutation(s): 2  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 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
046	B [auth A]	5-{[6-(acetylamino)pyrimidin-4-yl]oxy}-N-{4-[(4-methylpiperazin-1-yl)methyl]-3-(trifluoromethyl)phenyl}-2,3-dihydro-1H-indole-1-carboxamide C28 H30 F3 N7 O3 VQLNKQZLPGLOSI-UHFFFAOYSA-N
MLI	C [auth A]	MALONATE ION C3 H2 O4 OFOBLEOULBTSOW-UHFFFAOYSA-L

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.34 Å
• R-Value Free: 0.189 
• R-Value Work: 0.176 
• R-Value Observed: 0.177 
• Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 106.97	α = 90
b = 69.39	β = 98.98
c = 50.8	γ = 90

Software Package:

Software Name	Purpose
PHASER	phasing
BUSTER	refinement
XDS	data reduction
XSCALE	data scaling

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2011-11-02 
• Released Date: 2012-05-16 
Deposition Author(s): Scheufler, C., Tavares, G.A., Manley, P.W., Pissot-Soldermann, C., Kroemer, M.

Revision History  

• Version 1.0: 2012-05-16
  Type: Initial release
  
• Version 1.1: 2012-07-04
  Changes: Non-polymer description
• Version 1.2: 2012-08-29
  Changes: Database references
• Version 1.3: 2018-04-11
  Changes: Data collection, Structure summary