1MS6

Dipeptide Nitrile Inhibitor Bound to Cathepsin S.


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.9 Å
  • R-Value Free: 0.197 
  • R-Value Work: 0.155 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Design and synthesis of dipeptide nitriles as reversible and potent Cathepsin S inhibitors

Ward, Y.D.Thomson, D.S.Frye, L.L.Cywin, C.L.Morwick, T.Emmanuel, M.J.Zindell, R.McNeil, D.Bekkali, Y.Giradot, M.Hrapchak, M.DeTuri, M.Crane, K.White, D.Pav, S.Wang, Y.Hao, M.H.Grygon, C.A.Labadia, M.E.Freeman, D.M.Davidson, W.Hopkins, J.L.Brown, M.L.Spero, D.M.

(2002) J.Med.Chem. 45: 5471-5482


  • PubMed Abstract: 
  • The specificity of the immune response relies on processing of foreign proteins and presentation of antigenic peptides at the cell surface. Inhibition of antigen presentation, and the subsequent activation of T-cells, should, in theory, modulate the ...

    The specificity of the immune response relies on processing of foreign proteins and presentation of antigenic peptides at the cell surface. Inhibition of antigen presentation, and the subsequent activation of T-cells, should, in theory, modulate the immune response. The cysteine protease Cathepsin S performs a fundamental step in antigen presentation and therefore represents an attractive target for inhibition. Herein, we report a series of potent and reversible Cathepsin S inhibitors based on dipeptide nitriles. These inhibitors show nanomolar inhibition of the target enzyme as well as cellular potency in a human B cell line. The first X-ray crystal structure of a reversible inhibitor cocrystallized with Cathepsin S is also reported.


    Organizational Affiliation

    Boehringer Ingelheim Pharmaceuticals, Inc. 900 Ridgebury Road, P.O. Box 368, Ridgefield, Connecticut 06877-0368, USA. yward@rdg.boehringer-ingelheim.com




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Cathepsin S
A
222Homo sapiensGene Names: CTSS
EC: 3.4.22.27
Find proteins for P25774 (Homo sapiens)
Go to Gene View: CTSS
Go to UniProtKB:  P25774
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
BLN
Query on BLN

Download SDF File 
Download CCD File 
A
MORPHOLINE-4-CARBOXYLIC ACID [1S-(2-BENZYLOXY-1R-CYANO-ETHYLCARBAMOYL)-3-METHYL-BUTYL]AMIDE
C21 H30 N4 O4
LXEDKIMJQBOMSU-MOPGFXCFSA-N
 Ligand Interaction
External Ligand Annotations 
IDBinding Affinity (Sequence Identity %)
BLNIC50: 19 nM (100) BINDINGDB
BLNKd: 0.3 nM (100) BINDINGDB
BLNKd: 0.3 nM PDBBIND
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.9 Å
  • R-Value Free: 0.197 
  • R-Value Work: 0.155 
  • Space Group: P 41 2 2
Unit Cell:
Length (Å)Angle (°)
a = 85.290α = 90.00
b = 85.290β = 90.00
c = 150.070γ = 90.00
Software Package:
Software NamePurpose
X-PLORrefinement
DENZOdata reduction
SCALEPACKdata scaling
AMoREphasing

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Revision History 

  • Version 1.0: 2003-04-22
    Type: Initial release
  • Version 1.1: 2008-04-28
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance