› 6e8n

X-ray diffraction
3.2Å resolution

Crystal structure of glycosylated human EPDR1

Released:
DOI: 10.2210/pdb6e8n/pdb
PDB entry 6e8n coloured by chain, front view.
PDB entry 6e8n coloured by chain, side view.
PDB entry 6e8n coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Crystal structures of human lysosomal EPDR1 reveal homology with the superfamily of bacterial lipoprotein transporters.
Wei Y, Xiong ZJ, Li J, Zou C, Cairo CW, Klassen JS, Privé GG
Commun Biol 2 52 (2019)
PMID: 30729188

Function and Biology Details

Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-193955 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Mammalian ependymin-related protein 1 Chains: A, B
Molecule details ›
Chains: A, B
Length: 194 amino acids
Theoretical weight: 22.67 KDa
Source organism: Homo sapiens
Expression system: Homo sapiens
UniProt:
  • Canonical: Q9UM22 (Residues: 38-224; Coverage: 100%)
Gene names: EPDR1, MERP1, UCC1
Sequence domains: Ependymin

Ligands and Environments

1 bound ligand:
Ligand 2PE 2 x 2PE
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: CHESS BEAMLINE A1
Spacegroup: C2221
Unit cell:
a: 102.107Å b: 136.399Å c: 75.908Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.227 0.22 0.283
Expression system: Homo sapiens

Quick links

Citations

3 review citations

Brown Adipose Crosstalk in Tissue Plasticity and Human Metabolism.
Scheele et al. (2020)
2 more

1 mention without citation

An ependymin-related blue carotenoprotein decorates marine blue sponge.
Kawasaki et al. (2023)