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: 31.90 kDa 
• Atom Count: 2566 
• Modelled Residue Count: 266 
• Deposited Residue Count: 267 
• Unique protein chains: 1

7KXN

BTK1 SOAKED WITH COMPOUND 26

• PDB DOI: 10.2210/pdb7KXN/pdb

• Classification: TRANSFERASE
• Organism(s): Homo sapiens
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2020-12-04 Released: 2021-05-19 
• Deposition Author(s): Viacava Follis, A.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.34 Å
• R-Value Free: 0.197 
• R-Value Work: 0.164 
• R-Value Observed: 0.167 

Literature

Discovery of potent and selective reversible Bruton's tyrosine kinase inhibitors.

Qiu, H., Ali, Z., Bender, A., Caldwell, R., Chen, Y.Y., Fang, Z., Gardberg, A., Glaser, N., Goettsche, A., Goutopoulos, A., Grenningloh, R., Hanschke, B., Head, J., Johnson, T., Jones, C., Jones, R., Kulkarni, S., Maurer, C., Morandi, F., Neagu, C., Poetzsch, S., Potnick, J., Schmidt, R., Roe, K., Viacava Follis, A., Wing, C., Zhu, X., Sherer, B.

(2021) Bioorg Med Chem 40: 116163-116163

• PubMed: 33932711 
• DOI: 10.1016/j.bmc.2021.116163
• Primary Citation of Related Structures:  
  7KXL, 7KXM, 7KXN, 7KXO, 7KXP, 7KXQ


• PubMed Abstract: 
  

Bruton's tyrosine kinase (BTK) is a cytoplasmic, non-receptor tyrosine kinase member of the TEC family of tyrosine kinases. Pre-clinical and clinical data have shown that targeting BTK can be used for the treatment for B-cell disorders. Here we disclose the discovery of a novel imidazo[4,5-b]pyridine series of potent, selective reversible BTK inhibitors through a rational design approach. From a starting hit molecule 1, medicinal chemistry optimization led to the development of a lead compound 30, which exhibited 58 nM BTK inhibitory potency in human whole blood and high kinome selectivity. Additionally, the compound demonstrated favorable pharmacokinetics (PK), and showed potent dose-dependent efficacy in a rat CIA model.

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Organizational Affiliation: 

EMD Serono Research & Development Institute, 45A Middlesex Turnpike, Billerica, MA 01821, USA(1).

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Isoform BTK-C of Tyrosine-protein kinase BTK	A	267	Homo sapiens	Mutation(s): 0  Gene Names: BTK, AGMX1, ATK, BPK EC: 2.7.10.2
UniProt & NIH Common Fund Data Resources
Find proteins for Q06187 (Homo sapiens) Explore Q06187  Go to UniProtKB:  Q06187
PHAROS:  Q06187

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
X9P (Subject of Investigation/LOI)	B [auth A]	3-tert-butyl-N-[(1S)-6-{2-[5-methyl-1-(propan-2-yl)-1H-pyrazol-4-yl]-1H-imidazo[4,5-b]pyridin-7-yl}-1,2,3,4-tetrahydronaphthalen-1-yl]-1,2,4-oxadiazole-5-carboxamide C30 H34 N8 O2 YHVGIUIWPVYQHA-QHCPKHFHSA-N
DMS	C [auth A], D [auth A]	DIMETHYL SULFOXIDE C2 H6 O S IAZDPXIOMUYVGZ-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.34 Å
• R-Value Free: 0.197 
• R-Value Work: 0.164 
• R-Value Observed: 0.167 
• Space Group: P 2₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 72.497	α = 90
b = 103.34	β = 90
c = 38.619	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
PDB_EXTRACT	data extraction
XDS	data reduction
XDS	data scaling
REFMAC	phasing

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2020-12-04 
• Released Date: 2021-05-19 
Deposition Author(s): Viacava Follis, A.

Revision History  

• Version 1.0: 2021-05-19
  Type: Initial release