› 6mga

X-ray diffraction
3.15Å resolution

Crystal Structure of Human Protocadherin-1 EC1-4 with glycosylation

Released:
DOI: 10.2210/pdb6mga/pdb
PDB entry 6mga coloured by chain, front view.
PDB entry 6mga coloured by chain, side view.
PDB entry 6mga coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Identification of an adhesive interface for the non-clustered δ1 protocadherin-1 involved in respiratory diseases.
Modak D, Sotomayor M
Commun Biol 2 354 (2019)
PMID: 31583286

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-170601 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Protocadherin-1 Chain: A
Molecule details ›
Chain: A
Length: 459 amino acids
Theoretical weight: 50.05 KDa
Source organism: Homo sapiens
Expression system: Homo sapiens
UniProt:
  • Canonical: Q08174 (Residues: 58-503; Coverage: 45%)
Gene name: PCDH1
Sequence domains:

Ligands and Environments

3 bound ligands:
Ligand NAG 1 x NAG
Ligand MAN 1 x MAN
Ligand CA 9 x CA
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 24-ID-E
Spacegroup: P6122
Unit cell:
a: 147.227Å b: 147.227Å c: 149.366Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.217 0.215 0.263
Expression system: Homo sapiens

Quick links

Citations

2 review citations

Adhesion Protein Structure, Molecular Affinities, and Principles of Cell-Cell Recognition.
Honig et al. (2020)
1 more

2 mentions without citation

Identification of an adhesive interface for the non-clustered δ1 protocadherin-1 involved in respiratory diseases.
Modak et al. (2019)
1 more