› 2pwp

X-ray diffraction
2.1Å resolution

Crystal structure of spermidine synthase from Plasmodium falciparum in complex with spermidine

Released:
DOI: 10.2210/pdb2pwp/pdb
PDB entry 2pwp coloured by chain, front view.
PDB entry 2pwp coloured by chain, side view.
PDB entry 2pwp coloured by chain, top view.
Source organism: Plasmodium falciparum 3D7
Entry authors: Qiu W, Dong A, Ren H, Wu H, Zhao Y, Schapira M, Wasney G, Vedadi M, Lew J, Kozieradzki I, Edwards AM, Arrowsmith CH, Weigelt J, Sundstrom M, Plotnikov AN, Bochkarev A, Hui R, Structural Genomics Consortium (SGC)

Function and Biology Details

Reaction catalysed: 
S-adenosyl 3-(methylthio)propylamine + putrescine = 5'-S-methyl-5'-thioadenosine + spermidine
Biochemical function:
Biological process:
  • not assigned
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-184780 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
PABS domain-containing protein Chains: A, B, C
Molecule details ›
Chains: A, B, C
Length: 282 amino acids
Theoretical weight: 32.16 KDa
Source organism: Plasmodium falciparum 3D7
Expression system: Escherichia coli
UniProt:
  • Canonical: Q8II73 (Residues: 40-321; Coverage: 88%)
Gene name: PF3D7_1129000
Sequence domains:
Structure domains:

Ligands and Environments

3 bound ligands:
Ligand SPD 3 x SPD
Ligand GOL 3 x GOL
Ligand SO4 1 x SO4
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: RIGAKU FR-E+ SUPERBRIGHT
Spacegroup: C2
Unit cell:
a: 198.969Å b: 134.498Å c: 48.711Å
α: 90° β: 95.88° γ: 90°
R-values:
R R work R free
0.195 0.195 0.232
Expression system: Escherichia coli

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