› 6vg4

X-ray diffraction
3.3Å resolution

Human protocadherin 10 ectodomain

Released:
DOI: 10.2210/pdb6vg4/pdb
PDB entry 6vg4 coloured by chain, front view.
PDB entry 6vg4 coloured by chain, side view.
PDB entry 6vg4 coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Family-wide Structural and Biophysical Analysis of Binding Interactions among Non-clustered δ-Protocadherins.
Harrison OJ, Brasch J, Katsamba PS, Ahlsen G, Noble AJ, Dan H, Sampogna RV, Potter CS, Carragher B, Honig B, Shapiro L
Cell Rep 30 2655-2671.e7 (2020)
PMID: 32101743

Function and Biology Details

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

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-192836 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecules (3 distinct):
Protocadherin-10 Chain: A
Molecule details ›
Chain: A
Length: 669 amino acids
Theoretical weight: 73.16 KDa
Source organism: Homo sapiens
Expression system: Homo sapiens
UniProt:
  • Canonical: Q9P2E7 (Residues: 18-680; Coverage: 65%)
Gene names: KIAA1400, PCDH10
Sequence domains:

Ligands and Environments

Carbohydrate polymer : NEW Components: NAG
Carbohydrate polymer
Carbohydrate polymer : NEW Components: NAG, BMA
Carbohydrate polymer
5 bound ligands:
Ligand CA 15 x CA
Ligand MAN 3 x MAN
Ligand TAM 1 x TAM
Ligand CL 1 x CL
Ligand NA 1 x NA
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 24-ID-C
Spacegroup: P41212
Unit cell:
a: 84.087Å b: 84.087Å c: 543.917Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.23 0.227 0.284
Expression system: Homo sapiens

Quick links

Citations

4 review citations

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

1 mention without citation

Family-wide Structural and Biophysical Analysis of Binding Interactions among Non-clustered δ-Protocadherins.
Harrison et al. (2020)