Plasmodium falciparum lipocalin (PF3D7_0925900)

Experimental Data Snapshot

  • Resolution: 2.85 Å
  • R-Value Free: 0.236 
  • R-Value Work: 0.189 
  • R-Value Observed: 0.191 


Starting Model: experimental
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wwPDB Validation   3D Report Full Report

This is version 1.2 of the entry. See complete history


Structure-Based Identification and Functional Characterization of a Lipocalin in the Malaria Parasite Plasmodium falciparum.

Burda, P.C.Crosskey, T.Lauk, K.Zurborg, A.Sohnchen, C.Liffner, B.Wilcke, L.Pietsch, E.Strauss, J.Jeffries, C.M.Svergun, D.I.Wilson, D.W.Wilmanns, M.Gilberger, T.W.

(2020) Cell Rep 31: 107817-107817

  • DOI: https://doi.org/10.1016/j.celrep.2020.107817
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 

    Proteins of the lipocalin family are known to bind small hydrophobic ligands and are involved in various physiological processes ranging from lipid transport to oxidative stress responses. The genome of the malaria parasite Plasmodium falciparum contains a single protein PF3D7_0925900 with a lipocalin signature. Using crystallography and small-angle X-ray scattering, we show that the protein has a tetrameric structure of typical lipocalin monomers; hence we name it P. falciparum lipocalin (PfLCN). We show that PfLCN is expressed in the intraerythrocytic stages of the parasite and localizes to the parasitophorous and food vacuoles. Conditional knockdown of PfLCN impairs parasite development, which can be rescued by treatment with the radical scavenger Trolox or by temporal inhibition of hemoglobin digestion. This suggests a key function of PfLCN in counteracting oxidative stress-induced cell damage during multiplication of parasites within erythrocytes.

  • Organizational Affiliation

    Centre for Structural Systems Biology, 22607 Hamburg, Germany; Bernhard Nocht Institute for Tropical Medicine, 20359 Hamburg, Germany; University of Hamburg, 20146 Hamburg, Germany. Electronic address: burda@bnitm.de.

Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Serine/threonine protein kinase
A, B, C, D
196Plasmodium falciparum 3D7Mutation(s): 0 
Gene Names: PF3D7_0925900
Membrane Entity: Yes 
Find proteins for Q8I2Q0 (Plasmodium falciparum (isolate 3D7))
Explore Q8I2Q0 
Go to UniProtKB:  Q8I2Q0
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ8I2Q0
Sequence Annotations
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Resolution: 2.85 Å
  • R-Value Free: 0.236 
  • R-Value Work: 0.189 
  • R-Value Observed: 0.191 
  • Space Group: I 1 2 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 63.993α = 90
b = 92.25β = 98.35
c = 214.502γ = 90
Software Package:
Software NamePurpose
XDSdata reduction
Aimlessdata scaling

Structure Validation

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Entry History & Funding Information

Deposition Data

Funding OrganizationLocationGrant Number
European Molecular Biology OrganizationGermany--

Revision History  (Full details and data files)

  • Version 1.0: 2020-06-24
    Type: Initial release
  • Version 1.1: 2020-07-22
    Changes: Database references
  • Version 1.2: 2024-01-24
    Changes: Data collection, Database references, Refinement description