› 2q41

X-ray diffraction
2.7Å resolution

Ensemble refinement of the protein crystal structure of spermidine synthase from Arabidopsis thaliana gene At1g23820

Released:
DOI: 10.2210/pdb2q41/pdb
PDB entry 2q41 coloured by chain, ensemble of 8 models, front view.
PDB entry 2q41 coloured by chain, ensemble of 8 models, side view.
PDB entry 2q41 coloured by chain, ensemble of 8 models, top view.
Source organism: Arabidopsis thaliana
Primary publication:
Ensemble refinement of protein crystal structures: validation and application.
Levin EJ, Kondrashov DA, Wesenberg GE, Phillips GN
Structure 15 1040-52 (2007)
PMID: 17850744

Function and Biology Details

Reaction catalysed: 
S-adenosyl 3-(methylthio)propylamine + putrescine = 5'-S-methyl-5'-thioadenosine + spermidine
Biochemical function:
Biological process:
Cellular component:
Sequence domains:
Structure domain:

Structure analysis Details

Assembly composition:
homo tetramer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-195712 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Spermidine synthase 1 Chains: A, B, C, D
Molecule details ›
Chains: A, B, C, D
Length: 334 amino acids
Theoretical weight: 36.92 KDa
Source organism: Arabidopsis thaliana
Expression system: Escherichia coli
UniProt:
  • Canonical: Q9ZUB3 (Residues: 2-334; Coverage: 100%)
Gene names: At1g23820, F5O8.38, SPDSYN1
Sequence domains:
Structure domains:

Ligands and Environments

No bound ligands
1 modified residue:
Ligand MSE 32 x MSE

Experiments and Validation Details

Entry percentile scores
Spacegroup: P21
Unit cell:
a: 88.814Å b: 95.207Å c: 89.164Å
α: 90° β: 104.96° γ: 90°
R-values:
R R work R free
0.164 0.164 0.249
Expression system: Escherichia coli

Quick links

Citations

19 review citations

Enzymes in jasmonate biosynthesis - structure, function, regulation.
Schaller et al. (2009)
18 more

5 mentions without citation

Spermine synthase.
Pegg et al. (2010)
4 more