3VFE

Virtual Screening and X-Ray Crystallography for Human Kallikrein 6 Inhibitors with an Amidinothiophene P1 Group


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.88 Å
  • R-Value Free: 0.223 
  • R-Value Work: 0.193 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Human kallikrein 6 inhibitors with a para-amidobenzylanmine P1 group identified through virtual screening.

Liang, G.Chen, X.Aldous, S.Pu, S.F.Mehdi, S.Powers, E.Xia, T.Wang, R.

(2012) Bioorg.Med.Chem.Lett. 22: 2450-2455

  • DOI: 10.1016/j.bmcl.2012.02.014
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • A series of hK6 inhibitors with a para-amidobenzylamine P1 group and a 2-hydroxybenzamide scaffold linker was discovered through virtual screening. The X-ray structure of hK6 complexed with compound 9b was determined to a resolution of 1.68Å. The ter ...

    A series of hK6 inhibitors with a para-amidobenzylamine P1 group and a 2-hydroxybenzamide scaffold linker was discovered through virtual screening. The X-ray structure of hK6 complexed with compound 9b was determined to a resolution of 1.68Å. The tertiary folding of the hK6 complexed with the inhibitor is conserved relative to the structure of the apo-protein, whereas the interaction between hK6 and the inhibitor is consistent with both the SAR and the in silico model used in the virtual screening.


    Organizational Affiliation

    Molecular Innovative Therapeutics, Sanofi Pharmaceuticals, Bridgewater, NJ, USA. guyan.liang@verizon.net




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Kallikrein-6
A
223Homo sapiensMutation(s): 3 
Gene Names: KLK6 (PRSS18, PRSS9)
EC: 3.4.21.-
Find proteins for Q92876 (Homo sapiens)
Go to Gene View: KLK6
Go to UniProtKB:  Q92876
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
0HL
Query on 0HL

Download SDF File 
Download CCD File 
A
4-{[(3R)-3-{[(7-methoxynaphthalen-2-yl)sulfonyl](thiophen-3-ylmethyl)amino}-2-oxopyrrolidin-1-yl]methyl}thiophene-2-carboximidamide
C26 H26 N4 O4 S3
GWOFKCKOEZWDOK-HSZRJFAPSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.88 Å
  • R-Value Free: 0.223 
  • R-Value Work: 0.193 
  • Space Group: P 21 21 21
Unit Cell:
Length (Å)Angle (°)
a = 43.938α = 90.00
b = 47.909β = 90.00
c = 107.553γ = 90.00
Software Package:
Software NamePurpose
DENZOdata reduction
PDB_EXTRACTdata extraction
MOLREPphasing
CNSrefinement
CNXrefinement
SCALEPACKdata scaling

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2012-11-21
    Type: Initial release
  • Version 1.1: 2017-11-15
    Type: Refinement description