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.

Biological Assembly Evidence: gel filtration

Macromolecule Content

• Total Structure Weight: 36.42 kDa 
• Atom Count: 2201 
• Modelled Residue Count: 275 
• Deposited Residue Count: 322 
• Unique protein chains: 1

6IUO

Crystal structure of FGFR4 kinase domain in complex with a covalent inhibitor

• PDB DOI: 10.2210/pdb6IUO/pdb

• Classification: TRANSFERASE/INHIBITOR
• Organism(s): Homo sapiens
• Expression System: Escherichia coli
• Mutation(s): Yes 


• Deposited: 2018-11-29 Released: 2019-10-23 
• Deposition Author(s): Xu, Y., Liu, Q.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.30 Å
• R-Value Free: 0.232 
• R-Value Work: 0.186 
• R-Value Observed: 0.188 

Literature

Discovery and Development of a Series of Pyrazolo[3,4-d]pyridazinone Compounds as the Novel Covalent Fibroblast Growth Factor Receptor Inhibitors by the Rational Drug Design.

Wang, Y., Dai, Y., Wu, X., Li, F., Liu, B., Li, C., Liu, Q., Zhou, Y., Wang, B., Zhu, M., Cui, R., Tan, X., Xiong, Z., Liu, J., Tan, M., Xu, Y., Geng, M., Jiang, H., Liu, H., Ai, J., Zheng, M.

(2019) J Med Chem 62: 7473-7488

• PubMed: 31335138 
• DOI: 10.1021/acs.jmedchem.9b00510
• Primary Citation of Related Structures:  
  6ITJ, 6IUO, 6IUP


• PubMed Abstract: 
  

Alterations of fibroblast growth factor receptors (FGFRs) play key roles in numerous cancer progression and development, which makes FGFRs attractive targets in the cancer therapy. In the present study, based on a newly devised FGFR target-specific scoring function, a novel FGFR inhibitor hit was identified through virtual screening. Hit-to-lead optimization was then performed by integrating molecular docking and site-of-metabolism predictions with an array of in vitro evaluations and X-ray cocrystal structure determination, leading to a covalent FGFR inhibitor 15 , which showed a highly selective and potent FGFR inhibition profile. Pharmacokinetic assessment, protein kinase profiling, and hERG inhibition evaluation were also conducted, and they confirmed the value of 15 as a lead for further investigation. Overall, this study exemplifies the importance of the integrative use of computational methods and experimental techniques in drug discovery.

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Organizational Affiliation: 

University of Chinese Academy of Sciences , No. 19A Yuquan Road , Beijing 100049 , China.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Fibroblast growth factor receptor 4	A	322	Homo sapiens	Mutation(s): 1  Gene Names: FGFR4, JTK2, TKF EC: 2.7.10.1
UniProt & NIH Common Fund Data Resources
Find proteins for P22455 (Homo sapiens) Explore P22455  Go to UniProtKB:  P22455
PHAROS:  P22455

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
AWX	B [auth A]	N-({4-[4-amino-3-(3,5-dimethyl-1-benzofuran-2-yl)-7-oxo-6,7-dihydro-2H-pyrazolo[3,4-d]pyridazin-2-yl]phenyl}methyl)prop-2-enamide C25 H22 N6 O3 GXIHBWCRCZNSHX-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.30 Å
• R-Value Free: 0.232 
• R-Value Work: 0.186 
• R-Value Observed: 0.188 
• Space Group: H 3

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 138.716	α = 90
b = 138.716	β = 90
c = 49.814	γ = 120

Software Package:

Software Name	Purpose
REFMAC	refinement
HKL-2000	data reduction
HKL-2000	data scaling
PHASER	phasing
PDB_EXTRACT	data extraction

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2018-11-29 
• Released Date: 2019-10-23 
Deposition Author(s): Xu, Y., Liu, Q.

Revision History  

• Version 1.0: 2019-10-23
  Type: Initial release