1LF3

CRYSTAL STRUCTURE OF PLASMEPSIN II FROM P FALCIPARUM IN COMPLEX WITH INHIBITOR EH58

Structural Biology Knowledgebase: 1LF3 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.7 Å
  • R-Value Free: 0.224
  • R-Value Work: 0.178

Literature

Macromolecules
Sequence Display for 1LF3

Classification: HYDROLASE

Total Structure Weight: 37930.23

Macromolecule Entities
Molecule Chains Length Organism Details
plasmepsin 2 A 331 Plasmodium falciparum EC#: 3.4.23.39 IUBMB
Fragment: Residues 123-453
Gene Name(s):
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 1 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
EH5
Query on EH5

A N-(1-BENZYL-3-{[3-(1,3-DIOXO-1,3-DIHYDRO- ISOINDOL-2-YL)-PROPIONYL]-[2-(HEXAHYDRO-BENZO[1,3]DIOXOL- 5-YL)-ETHYL]-AMINO}-2-HYDROXY-PROPYL)-4-BENZYLOXY- 3,5-DIMETHOXY-BENZAMIDE
C46 H51 N3 O10
PJQGNNQTZMYXOB-HAMMGQCISA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
EH5 Ki: 100 nM (100) BindingDB

N/A in BindingMoad
Ki: 100 nM  PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.7 Å
  • R-Value Free: 0.224
  • R-Value Work: 0.178
  • Space Group: P 1 2 1
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 53.41 α = 90.00
b = 39.90 β = 105.11
c = 91.41 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2002-04-10
  • Released Date: 2002-10-10
  • Deposition author(s): Asojo, O.A., Gulnik, S.V., Afonina, E., Yu, B., Ellman, J.A., Haque, T.S., Silva, A.M.

Revision History

  • 2011-07-13
    Type: Biological assembly | Details: Added software calculated values
  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4