8TU4

Bruton's tyrosine kinase in complex with covalent inhibitor compound 25


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.60 Å
  • R-Value Free: 0.259 
  • R-Value Work: 0.220 
  • R-Value Observed: 0.222 

Starting Model: experimental
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wwPDB Validation   3D Report Full Report


Ligand Structure Quality Assessment 


This is version 1.1 of the entry. See complete history


Literature

Discovery and Preclinical Characterization of BIIB129, a Covalent, Selective, and Brain-Penetrant BTK Inhibitor for the Treatment of Multiple Sclerosis.

Himmelbauer, M.K.Bajrami, B.Basile, R.Capacci, A.Chen, T.Choi, C.K.Gilfillan, R.Gonzalez-Lopez de Turiso, F.Gu, C.Hoemberger, M.Johnson, D.S.Jones, J.H.Kadakia, E.Kirkland, M.Lin, E.Y.Liu, Y.Ma, B.Magee, T.Mantena, S.Marx, I.E.Metrick, C.M.Mingueneau, M.Murugan, P.Muste, C.A.Nadella, P.Nevalainen, M.Parker Harp, C.R.Pattaropong, V.Pietrasiewicz, A.Prince, R.J.Purgett, T.J.Santoro, J.C.Schulz, J.Sciabola, S.Tang, H.Vandeveer, H.G.Wang, T.Yousaf, Z.Helal, C.J.Hopkins, B.T.

(2024) J Med Chem 67: 8122-8140

  • DOI: https://doi.org/10.1021/acs.jmedchem.4c00220
  • Primary Citation of Related Structures:  
    8TU3, 8TU4, 8TU5

  • PubMed Abstract: 

    Multiple sclerosis (MS) is a chronic disease with an underlying pathology characterized by inflammation-driven neuronal loss, axonal injury, and demyelination. Bruton's tyrosine kinase (BTK), a nonreceptor tyrosine kinase and member of the TEC family of kinases, is involved in the regulation, migration, and functional activation of B cells and myeloid cells in the periphery and the central nervous system (CNS), cell types which are deemed central to the pathology contributing to disease progression in MS patients. Herein, we describe the discovery of BIIB129 ( 25 ), a structurally distinct and brain-penetrant targeted covalent inhibitor (TCI) of BTK with an unprecedented binding mode responsible for its high kinome selectivity. BIIB129 ( 25 ) demonstrated efficacy in disease-relevant preclinical in vivo models of B cell proliferation in the CNS, exhibits a favorable safety profile suitable for clinical development as an immunomodulating therapy for MS, and has a low projected total human daily dose.


  • Organizational Affiliation

    Biogen Research and Development, 225 Binney Street, Cambridge, Massachusetts 02142, United States.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Tyrosine-protein kinase BTK283Homo sapiensMutation(s): 0 
Gene Names: BTKAGMX1ATKBPK
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
GTEx:  ENSG00000010671 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ06187
Sequence Annotations
Expand
  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
V72 (Subject of Investigation/LOI)
Query on V72

Download Ideal Coordinates CCD File 
B [auth A]N-methyl-N-[(1S,3r)-3-methyl-3-{[(6M,8S)-6-(1-methyl-1H-pyrazol-4-yl)pyrazolo[1,5-a]pyrazin-4-yl]oxy}cyclobutyl]propanamide
C19 H24 N6 O2
MOIIQKULMWBCCK-QUWSVYMGSA-N
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.60 Å
  • R-Value Free: 0.259 
  • R-Value Work: 0.220 
  • R-Value Observed: 0.222 
  • Space Group: P 21 21 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 70.17α = 90
b = 104.69β = 90
c = 37.96γ = 90
Software Package:
Software NamePurpose
XDSdata reduction
PHENIXrefinement
PHENIXphasing

Structure Validation

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Ligand Structure Quality Assessment 


Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Not funded--

Revision History  (Full details and data files)

  • Version 1.0: 2024-06-26
    Type: Initial release
  • Version 1.1: 2024-10-23
    Changes: Structure summary