2ZEB

Potent, Nonpeptide Inhibitors of Human Mast Cell Tryptase


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.50 Å
  • R-Value Free: 0.225 
  • R-Value Work: 0.172 

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Ligand Structure Quality Assessment 


This is version 1.2 of the entry. See complete history


Literature

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. [email protected]


Macromolecules
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 (PDB Primary Data), 3.4.21.59 (UniProt)
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
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.50 Å
  • R-Value Free: 0.225 
  • R-Value Work: 0.172 
  • Space Group: P 41
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 82.67α = 90
b = 82.67β = 90
c = 171.565γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
PDB_EXTRACTdata extraction
HKL-2000data collection
HKL-2000data reduction
HKL-2000data scaling

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: 2024-11-06
    Changes: Data collection, Database references, Derived calculations, Structure summary