› 2rb3

X-ray diffraction
2.1Å resolution

Crystal Structure of Human Saposin D

Released:
DOI: 10.2210/pdb2rb3/pdb
PDB entry 2rb3 coloured by chain, front view.
PDB entry 2rb3 coloured by chain, side view.
PDB entry 2rb3 coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Crystal structures of human saposins C andD: implications for lipid recognition and membrane interactions.
Rossmann M, Schultz-Heienbrok R, Behlke J, Remmel N, Alings C, Sandhoff K, Saenger W, Maier T
Structure 16 809-17 (2008)
PMID: 18462685

Function and Biology Details

Biochemical function:
  • not assigned
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-139657 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Saposin-D Chains: A, B, C, D
Molecule details ›
Chains: A, B, C, D
Length: 85 amino acids
Theoretical weight: 9.65 KDa
Source organism: Homo sapiens
Expression system: Komagataella pastoris
UniProt:
  • Canonical: P07602 (Residues: 407-484; Coverage: 15%)
Gene names: GLBA, PSAP, SAP1
Sequence domains:
Structure domains: Saposin-like

Ligands and Environments

2 bound ligands:
Ligand SO4 3 x SO4
Ligand GOL 2 x GOL
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: OTHER
Spacegroup: P1
Unit cell:
a: 40.154Å b: 41.088Å c: 65.929Å
α: 89.96° β: 80.84° γ: 71.49°
R-values:
R R work R free
0.214 0.211 0.274
Expression system: Komagataella pastoris

Quick links

Citations

15 review citations

Lysosomal degradation of membrane lipids.
Kolter et al. (2010)
14 more

6 mentions without citation

Characterization of common SMPD1 mutations causing types A and B Niemann-Pick disease and generation of mutation-specific mouse models.
Jones et al. (2008)
5 more