Potent, Nonpeptide Inhibitors of Human Mast Cell Tryptase

Experimental Data Snapshot

  • Resolution: 2.06 Å
  • R-Value Free: 0.256 
  • R-Value Work: 0.207 

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Potent, nonpeptide inhibitors of human mast cell tryptase. Synthesis and biological evaluation of novel spirocyclic piperidine amide derivatives

Costanzo, M.J.Yabut, S.C.Zhang, H.-C.White, K.B.de Garavilla, L.Wang, Y.Minor, L.K.Tounge, B.A.Barnakov, A.N.Lewandowski, F.Milligan, C.Spurlino, J.C.Abraham, W.M.Boswell-Smith, V.Page, C.P.Maryanoff, B.E.

(2008) Bioorg Med Chem Lett 18: 2114-2121

  • DOI: https://doi.org/10.1016/j.bmcl.2008.01.093
  • Primary Citation of Related Structures:  
    2ZA5, 2ZEB, 2ZEC

  • PubMed Abstract: 

    We have explored a series of spirocyclic piperidine amide derivatives (5) as tryptase inhibitors. Thus, 4 (JNJ-27390467) was identified as a potent, selective tryptase inhibitor with oral efficacy in two animal models of airway inflammation (sheep and guinea pig asthma models). An X-ray co-crystal structure of 4 x tryptase revealed a hydrophobic pocket in the enzyme's active site, which is induced by the phenylethynyl group and is comprised of amino acid residues from two different monomers of the tetrameric protein.

  • Organizational Affiliation

    Research and Early Development, Johnson & Johnson Pharmaceutical Research & Development, Welsh & McKean Roads, Spring House, PA 19477-0776, USA. mcostanz@prdus.jnj.com

Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Tryptase beta 2
A, B, C, D
243Homo sapiensMutation(s): 0 
Gene Names: TPSB2
EC: 3.4.21
UniProt & NIH Common Fund Data Resources
Find proteins for Q15661 (Homo sapiens)
Explore Q15661 
Go to UniProtKB:  Q15661
PHAROS:  Q15661
GTEx:  ENSG00000172236 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ15661
Sequence Annotations
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Resolution: 2.06 Å
  • R-Value Free: 0.256 
  • R-Value Work: 0.207 
  • Space Group: P 41
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 82.26α = 90
b = 82.26β = 90
c = 170.65γ = 90
Software Package:
Software NamePurpose
DENZOdata reduction
SCALEPACKdata scaling
PDB_EXTRACTdata extraction

Structure Validation

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Ligand Structure Quality Assessment 

Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2008-12-09
    Type: Initial release
  • Version 1.1: 2011-07-13
    Changes: Version format compliance
  • Version 1.2: 2017-10-11
    Changes: Refinement description