2HH5

Crystal Structure of Cathepsin S in complex with a Zinc mediated non-covalent arylaminoethyl amide


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.8 Å
  • R-Value Free: 0.220 
  • R-Value Work: 0.173 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Synthesis and SAR of arylaminoethyl amides as noncovalent inhibitors of cathepsin S: P3 cyclic ethers.

Tully, D.C.Liu, H.Chatterjee, A.K.Alper, P.B.Epple, R.Williams, J.A.Roberts, M.J.Woodmansee, D.H.Masick, B.T.Tumanut, C.Li, J.Spraggon, G.Hornsby, M.Chang, J.Tuntland, T.Hollenbeck, T.Gordon, P.Harris, J.L.Karanewsky, D.S.

(2006) Bioorg.Med.Chem.Lett. 16: 5112-5117

  • DOI: 10.1016/j.bmcl.2006.07.033
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • The synthesis and structure-activity relationship of a series of arylaminoethyl amide cathepsin S inhibitors are reported. Optimization of P3 and P2 groups to improve overall physicochemical properties resulted in significant improvements in oral bio ...

    The synthesis and structure-activity relationship of a series of arylaminoethyl amide cathepsin S inhibitors are reported. Optimization of P3 and P2 groups to improve overall physicochemical properties resulted in significant improvements in oral bioavailability over early lead compounds. An X-ray structure of compound 37 bound to the active site of cathepsin S is also reported.


    Related Citations: 
    • Synthesis and evaluation of arylaminoethyl amides as noncovalent inhibitors of cathepsin S. Part 3: heterocyclic P3.
      Tully, D.C.,Liu, H.,Alper, P.B.,Chatterjee, A.K.,Epple, R.,Roberts, M.J.,Williams, J.A.,Nguyen, K.T.,Woodmansee, D.H.,Tumanut, C.,Li, J.,Spraggon, G.,Chang, J.,Tuntland, T.,Harris, J.L.,Karanewsky, D.S.
      (2006) Bioorg.Med.Chem.Lett. 16: 1975


    Organizational Affiliation

    Genomics Institute of the Novartis Research Foundation, 10675 John J. Hopkins Dr., San Diego, CA 92121, USA. dtully@gnf.org




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Cathepsin S
B, A
220Homo sapiensMutation(s): 0 
Gene 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 3 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
GNQ
Query on GNQ

Download SDF File 
Download CCD File 
A, B
N-[(1R)-1-[(BENZYLSULFONYL)METHYL]-2-{[(1S)-1-METHYL-2-{[4-(TRIFLUOROMETHOXY)PHENYL]AMINO}ETHYL]AMINO}-2-OXOETHYL]MORPHOLINE-4-CARBOXAMIDE
C25 H31 F3 N4 O6 S
LIOLGHUQUQDMDF-AVRDEDQJSA-N
 Ligand Interaction
ZN
Query on ZN

Download SDF File 
Download CCD File 
A, B
ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
 Ligand Interaction
CL
Query on CL

Download SDF File 
Download CCD File 
A, B
CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M
 Ligand Interaction
External Ligand Annotations 
IDBinding Affinity (Sequence Identity %)
GNQKi: 32 nM (100) BINDINGDB
GNQKi: 32 nM BINDINGMOAD
GNQKi: 32 nM PDBBIND
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.8 Å
  • R-Value Free: 0.220 
  • R-Value Work: 0.173 
  • Space Group: H 3
Unit Cell:
Length (Å)Angle (°)
a = 109.542α = 90.00
b = 109.542β = 90.00
c = 98.529γ = 120.00
Software Package:
Software NamePurpose
HKL-2000data scaling
PROCESSdata reduction
MOLREPphasing
REFMACrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2006-08-15
    Type: Initial release
  • Version 1.1: 2008-05-01
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance