5ZKH | pdb_00005zkh

Crystal Structure of N-terminal Domain of Plasmodium falciparum p43

• PDB DOI: https://doi.org/10.2210/pdb5ZKH/pdb

• Classification: LIGASE
• Organism(s): Plasmodium falciparum Dd2
• Expression System: Escherichia coli BL21
• Mutation(s): No 


• Deposited: 2018-03-23 Released: 2019-04-24 
• Deposition Author(s): Manickam, Y., Sharma, A., Khan, S.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.99 Å
• R-Value Free: 
  0.254 (Depositor), 0.240 (DCC) 
• R-Value Work: 
  0.214 (Depositor), 0.220 (DCC) 
• R-Value Observed: 
  0.216 (Depositor) 

Literature

Structural analysis of aminoacyl-tRNA synthetase-interacting multifunctional proteins from plasmodium species

Manickam, Y., Sharma, A.

To be published.

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

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

Biological Assembly Evidence: gel filtration

Macromolecule Content 

• Total Structure Weight: 42.79 kDa 
• Atom Count: 2,499 
• Modeled Residue Count: 328 
• Deposited Residue Count: 360 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Aminoacyl tRNA synthetase complex-interacting multifunctional protein P43	A, B	180	Plasmodium falciparum Dd2	Mutation(s): 0  Gene Names: PFDG_03875
UniProt
Find proteins for A0A0L7M8L6 (Plasmodium falciparum (isolate Dd2)) Explore A0A0L7M8L6  Go to UniProtKB:  A0A0L7M8L6

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.99 Å
• R-Value Free:  0.254 (Depositor), 0.240 (DCC) 
• R-Value Work:  0.214 (Depositor), 0.220 (DCC) 
• R-Value Observed: 0.216 (Depositor) 

Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 109.71	α = 90
b = 44.371	β = 111.94
c = 77.472	γ = 90

Software Package:

Software Name	Purpose
HKL-2000	data scaling
PHASER	phasing
PHENIX	refinement
PDB_EXTRACT	data extraction
HKL-2000	data reduction

Structure Validation

Entry History 

Deposition Data

• Released Date: 2019-04-24 
Deposition Author(s): Manickam, Y., Sharma, A., Khan, S.

Revision History  

• Version 1.0: 2019-04-24
  Type: Initial release
  
• Version 1.1: 2024-03-27
  Changes: Data collection, Database references