› 2jgt

X-ray diffraction
3Å resolution

Low resolution structure of SPT

Released:
DOI: 10.2210/pdb2jgt/pdb
PDB entry 2jgt coloured by chain, front view.
PDB entry 2jgt coloured by chain, side view.
PDB entry 2jgt coloured by chain, top view.
Source organism: Sphingomonas paucimobilis
Primary publication:
The structure of serine palmitoyltransferase; gateway to sphingolipid biosynthesis.
Yard BA, Carter LG, Johnson KA, Overton IM, Dorward M, Liu H, McMahon SA, Oke M, Puech D, Barton GJ, Naismith JH, Campopiano DJ
J Mol Biol 370 870-86 (2007)
PMID: 17559874

Function and Biology Details

Reaction catalysed: 
Palmitoyl-CoA + L-serine = CoA + 3-dehydro-D-sphinganine + CO(2)
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-188138 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Serine palmitoyltransferase Chains: A, B
Molecule details ›
Chains: A, B
Length: 422 amino acids
Theoretical weight: 45.35 KDa
Source organism: Sphingomonas paucimobilis
Expression system: Escherichia coli
UniProt:
  • Canonical: Q93UV0 (Residues: 1-420; Coverage: 100%)
Gene names: HKX06_04505, I6G38_17245, SPT1, spt
Sequence domains: Aminotransferase class I and II
Structure domains:

Ligands and Environments

No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: ESRF BEAMLINE BM14
Spacegroup: C2221
Unit cell:
a: 93.866Å b: 109.537Å c: 187.031Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.251 0.25 0.276
Expression system: Escherichia coli

Quick links

Citations

18 review citations

Sphingolipid and glycosphingolipid metabolic pathways in the era of sphingolipidomics.
Merrill AH. (2011)
17 more

3 mentions without citation

Sphingolipid biosynthesis in man and microbes.
Harrison et al. (2018)
2 more