› 5erd

X-ray diffraction
2.9Å resolution

Crystal structure of human Desmoglein-2 ectodomain

Released:
DOI: 10.2210/pdb5erd/pdb
PDB entry 5erd coloured by chain, front view.
PDB entry 5erd coloured by chain, side view.
PDB entry 5erd coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Structural basis of adhesive binding by desmocollins and desmogleins.
Harrison OJ, Brasch J, Lasso G, Katsamba PS, Ahlsen G, Honig B, Shapiro L
Proc Natl Acad Sci U S A 113 7160-5 (2016)
PMID: 27298358

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-171926 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecules (4 distinct):
Desmoglein-2 Chains: A, B
Molecule details ›
Chains: A, B
Length: 559 amino acids
Theoretical weight: 62.58 KDa
Source organism: Homo sapiens
Expression system: Homo sapiens
UniProt:
  • Canonical: Q14126 (Residues: 50-602; Coverage: 51%)
Gene names: CDHF5, DSG2
Sequence domains: Cadherin domain

Ligands and Environments

Carbohydrate polymer : NEW Components: NAG, BMA
Carbohydrate polymer
Carbohydrate polymer : NEW Components: NAG, BMA, FUC
Carbohydrate polymer
Carbohydrate polymer : NEW Components: NAG
Carbohydrate polymer
4 bound ligands:
Ligand NAG 3 x NAG
Ligand MAN 6 x MAN
Ligand CA 22 x CA
Ligand EDO 1 x EDO
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 24-ID-E
Spacegroup: P212121
Unit cell:
a: 90.968Å b: 114.476Å c: 226.127Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.244 0.241 0.287
Expression system: Homo sapiens

Quick links

Citations

34 review citations

Pemphigus.
Kasperkiewicz et al. (2017)
33 more

15 mentions without citation

Structural basis of adhesive binding by desmocollins and desmogleins.
Harrison et al. (2016)
14 more