5JOD

Structure of proplasmepsin IV from Plasmodium falciparum


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.528 Å
  • R-Value Free: 0.209 
  • R-Value Work: 0.179 

wwPDB Validation 3D Report Full Report


This is version 1.3 of the entry. See complete history

Literature

Crystal structure of Plasmodium falciparum proplasmepsin IV: the plasticity of proplasmepsins.

Recacha, R.Jaudzems, K.Akopjana, I.Jirgensons, A.Tars, K.

(2016) Acta Crystallogr.,Sect.F 72: 659-666

  • DOI: 10.1107/S2053230X16011663
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • Plasmepsin IV from Plasmodium falciparum (PM IV) is a promising target for the development of novel antimalarial drugs. Here, the crystal structure of the truncated zymogen of PM IV (pPM IV), consisting of the mature enzyme plus a prosegment of 47 re ...

    Plasmepsin IV from Plasmodium falciparum (PM IV) is a promising target for the development of novel antimalarial drugs. Here, the crystal structure of the truncated zymogen of PM IV (pPM IV), consisting of the mature enzyme plus a prosegment of 47 residues, has been determined at 1.5 Å resolution. pPM IV presents the fold previously described for studied proplasmepsins, displaying closer similarities to proplasmepin IV from P. vivax (pPvPM) than to the other two proplasmepsins from P. falciparum. The study and comparison of the pPM IV structure with the proplasmepsin structures described previously provide information about the similarities and differences in the inactivation-activation mechanisms among the plasmepsin zymogens.


    Related Citations: 
    • Structural insights into the activation of P. vivax plasmepsin.
      Bernstein, N.K.,Cherney, M.M.,Yowell, C.A.,Dame, J.B.,James, M.N.
      (2003) J. Mol. Biol. 329: 505
    • Crystal structure of the novel aspartic proteinase zymogen proplasmepsin II from plasmodium falciparum.
      Bernstein, N.K.,Cherney, M.M.,Loetscher, H.,Ridley, R.G.,James, M.N.
      (1999) Nat. Struct. Biol. 6: 32


    Organizational Affiliation

    Latvian Institute of Organic Synthesis, Aizkraukles 21, Riga, LV-1006, Latvia.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Proplasmepsin IV
A, B
375Plasmodium falciparumMutation(s): 0 
Find proteins for W7FF86 (Plasmodium falciparum)
Go to UniProtKB:  W7FF86
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
GOL
Query on GOL

Download SDF File 
Download CCD File 
A, B
GLYCEROL
GLYCERIN; PROPANE-1,2,3-TRIOL
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.528 Å
  • R-Value Free: 0.209 
  • R-Value Work: 0.179 
  • Space Group: P 1 21 1
Unit Cell:
Length (Å)Angle (°)
a = 82.909α = 90.00
b = 62.780β = 113.50
c = 94.030γ = 90.00
Software Package:
Software NamePurpose
iMOSFLMdata reduction
PHASERphasing
Aimlessdata scaling
PHENIXrefinement
PDB_EXTRACTdata extraction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2016-08-17
    Type: Initial release
  • Version 1.1: 2016-09-14
    Type: Database references
  • Version 1.2: 2016-09-28
    Type: Database references
  • Version 1.3: 2018-01-17
    Type: Data collection