› 8g9v

X-ray diffraction
2.64Å resolution

Crystal structures of 17-beta-hydroxysteroid dehydrogenase 13

Released:
DOI: 10.2210/pdb8g9v/pdb
PDB entry 8g9v coloured by chain, front view.
PDB entry 8g9v coloured by chain, side view.
PDB entry 8g9v coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Structural basis of lipid-droplet localization of 17-beta-hydroxysteroid dehydrogenase 13.
Liu S, Sommese RF, Nedoma NL, Stevens LM, Dutra JK, Zhang L, Edmonds DJ, Wang Y, Garnsey M, Clasquin MF
OpenAccess logo Nat Commun 14 5158 (2023)
PMID: 37620305

Function and Biology Details

Reactions catalysed: 
All-trans-retinol-[cellular-retinol-binding-protein] + NAD(+) = all-trans-retinal-[cellular-retinol-binding-protein] + NADH
17-beta-estradiol + NAD(P)(+) = estrone + NAD(P)H
Biochemical function:
  • not assigned
Biological process:
  • not assigned
Cellular component:
  • not assigned

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-226305 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
17-beta-hydroxysteroid dehydrogenase 13 Chains: A, B, C, D, E, F, G, H
Molecule details ›
Chains: A, B, C, D, E, F, G, H
Length: 315 amino acids
Theoretical weight: 35.5 KDa
Source organism: Homo sapiens
Expression system: Spodoptera frugiperda
UniProt:
  • Canonical: Q7Z5P4 (Residues: 2-300; Coverage: 100%)
Gene names: HMFN0376, HSD17B13, SCDR9, SDR16C3, UNQ497/PRO1014
Sequence domains: short chain dehydrogenase

Ligands and Environments


Cofactor: Ligand NAD 8 x NAD
3 bound ligands:
Ligand YYC 8 x YYC
Ligand CE1 4 x CE1
Ligand SO4 17 x SO4
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 17-ID
Spacegroup: P21
Unit cell:
a: 96.15Å b: 161.56Å c: 100.77Å
α: 90° β: 95.05° γ: 90°
R-values:
R R work R free
0.214 0.212 0.244
Expression system: Spodoptera frugiperda

Quick links