9KHR | pdb_00009khr

Crystal structure of Plasmoredoxin, a disulfide oxidoreductase from Plasmodium falciparum crystallized in the presence of Dithiothreitol (DTT)

• PDB DOI: https://doi.org/10.2210/pdb9KHR/pdb

• Classification: OXIDOREDUCTASE
• Organism(s): Plasmodium falciparum 3D7
• Expression System: Escherichia coli 'BL21-Gold(DE3)pLysS AG
• Mutation(s): No 


• Deposited: 2024-11-11 Released: 2025-11-12 
• Deposition Author(s): Panicker, L.
• Funding Organization(s): Other government

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.00 Å
• R-Value Free: 
  0.235 (Depositor), 0.234 (DCC) 
• R-Value Work: 
  0.206 (Depositor), 0.205 (DCC) 
• R-Value Observed: 
  0.207 (Depositor) 

Starting Model: experimental

Literature

Crystal structure of Plasmoredoxin, a disulfide oxidoreductase from Plasmodium falciparum crystallized in the presence of Dithiothreitol (DTT)

Panicker, L.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors and generated by PISA (software)

Biological Assembly Evidence: gel filtration

Macromolecule Content 

• Total Structure Weight: 25.99 kDa 
• Atom Count: 1,527 
• Modeled Residue Count: 169 
• Deposited Residue Count: 212 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Plasmoredoxin	A	212	Plasmodium falciparum 3D7	Mutation(s): 0  Gene Names: PF3D7_0303600
UniProt
Find proteins for Q8I224 (Plasmodium falciparum (isolate 3D7)) Explore Q8I224  Go to UniProtKB:  Q8I224

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.00 Å
• R-Value Free:  0.235 (Depositor), 0.234 (DCC) 
• R-Value Work:  0.206 (Depositor), 0.205 (DCC) 
• R-Value Observed: 0.207 (Depositor) 

Diffraction Data: https://doi.org/10.5281/zenodo.14070468

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 48.704	α = 90
b = 50.31	β = 90
c = 78.018	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
Aimless	data scaling
XDS	data reduction
PHENIX	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2025-11-12 
Deposition Author(s): Panicker, L.

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Funding Organization	Location	Grant Number
Other government	India	NA

Revision History  

• Version 1.0: 2025-11-12
  Type: Initial release