5QC4

Crystal structure of human Cathepsin-S with bound ligand


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2 Å
  • R-Value Free: 0.210 
  • R-Value Work: 0.152 

wwPDB Validation 3D Report Full Report


This is version 2.0 of the entry. See complete history

Literature

Thioether acetamides as P3 binding elements for tetrahydropyrido-pyrazole cathepsin S inhibitors.

Wiener, D.K.Lee-Dutra, A.Bembenek, S.Nguyen, S.Thurmond, R.L.Sun, S.Karlsson, L.Grice, C.A.Jones, T.K.Edwards, J.P.

(2010) Bioorg.Med.Chem.Lett. 20: 2379-2382

  • DOI: 10.1016/j.bmcl.2010.01.103
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • A series of tetrahydropyrido-pyrazole cathepsin S (CatS) inhibitors with thioether acetamide functional groups were prepared with the goal of improving upon the cellular activity of amidoethylthioethers. This Letter describes altered amide connectivi ...

    A series of tetrahydropyrido-pyrazole cathepsin S (CatS) inhibitors with thioether acetamide functional groups were prepared with the goal of improving upon the cellular activity of amidoethylthioethers. This Letter describes altered amide connectivity, in conjunction with changes to other binding elements, resulting in improved potency, as well as increased knowledge of the relationship between this chemotype and human CatS activity.


    Organizational Affiliation

    Johnson & Johnson Pharmaceutical Research & Development, L.L.C., 3210 Merryfield Row, San Diego, CA 92121, United States. dwiener@its.jnj.com




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Cathepsin S
A, B
223Homo sapiensMutation(s): 1 
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 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
BC7
Query on BC7

Download SDF File 
Download CCD File 
A, B
2-[5-[5-ethanoyl-1-[(2~{R})-2-oxidanyl-3-[4-(2-oxidanylpropan-2-yl)piperidin-1-yl]propyl]-6,7-dihydro-4~{H}-pyrazolo[4,3-c]pyridin-3-yl]-2-(trifluoromethyl)phenyl]sulfanyl-1-pyrrolidin-1-yl-ethanone
C32 H44 F3 N5 O4 S
QMRXULKWYQUBRF-XMMPIXPASA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2 Å
  • R-Value Free: 0.210 
  • R-Value Work: 0.152 
  • Space Group: P 1
Unit Cell:
Length (Å)Angle (°)
a = 37.020α = 70.75
b = 52.970β = 71.79
c = 58.580γ = 73.21
Software Package:
Software NamePurpose
PDB_EXTRACTdata extraction
SCALAdata scaling
PHENIXrefinement
MOSFLMdata reduction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2017-12-20
    Type: Initial release
  • Version 1.1: 2018-02-21
    Type: Structure summary
  • Version 2.0: 2018-06-06
    Type: Atomic model, Data collection, Refinement description, Structure summary