3E90

West Nile vi rus NS2B-NS3protease in complexed with inhibitor Naph-KKR-H


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.45 Å
  • R-Value Free: 0.244
  • R-Value Work: 0.197

Literature

Macromolecules
Sequence Display for 3E90

Classification: HYDROLASE

Total Structure Weight: 54633.52

Macromolecule Entities
Molecule Chains Length Organism Details
NS2B cofactor A, C 50 West nile virus Gene Name(s):
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
NS3 protease B, D 198 West nile virus EC#: 3.4.21.91 IUBMB
Gene Name(s):

Small Molecules
Ligands 1 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
NKK
Query on NKK

B, D N~2~-(naphthalen-2-ylcarbonyl)-L-lysyl-N- [(1S)-4-carbamimidamido-1-formylbutyl]-L- lysinamide
C29 H44 N8 O4
VYVVOKKLVHYYQD-SDHOMARFSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
NKK IC50: 231 nM (96) BindingDB
Ki: 41 nM (96) BindingDB

N/A in BindingMoad
Ki: 41 nM  PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.45 Å
  • R-Value Free: 0.244
  • R-Value Work: 0.197
  • Space Group: C 2 2 21

Unit Cell:

Length (Å) Angle (°)
a = 87.51 α = 90.00
b = 165.91 β = 90.00
c = 79.82 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2008-08-21
  • Released Date: 2009-01-20
  • Deposition author(s): Martin, J.L., Robin, G.

Revision History

  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4