› 5y2z

X-ray diffraction
2.67Å resolution

Crystal structure of human LGI1 EPTP-ADAM22 complex

Released:
DOI: 10.2210/pdb5y2z/pdb
PDB entry 5y2z coloured by chain, front view.
PDB entry 5y2z coloured by chain, side view.
PDB entry 5y2z coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Structural basis of epilepsy-related ligand-receptor complex LGI1-ADAM22.
Yamagata A, Miyazaki Y, Yokoi N, Shigematsu H, Sato Y, Goto-Ito S, Maeda A, Goto T, Sanbo M, Hirabayashi M, Shirouzu M, Fukata Y, Fukata M, Fukai S
Nat Commun 9 1546 (2018)
PMID: 29670100

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-132091 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (6 distinct):
Disintegrin and metalloproteinase domain-containing protein 22 Chains: A, C, E, G, I, K
Molecule details ›
Chains: A, C, E, G, I, K
Length: 504 amino acids
Theoretical weight: 55.76 KDa
Source organism: Homo sapiens
Expression system: Mammalia
UniProt:
  • Canonical: Q9P0K1 (Residues: 233-729; Coverage: 56%)
Gene names: ADAM22, MDC2
Sequence domains:
Structure domains:
Leucine-rich glioma-inactivated protein 1 Chains: B, D, F, H, J, L
Molecule details ›
Chains: B, D, F, H, J, L
Length: 347 amino acids
Theoretical weight: 40.38 KDa
Source organism: Homo sapiens
Expression system: Mammalia
UniProt:
  • Canonical: O95970 (Residues: 224-557; Coverage: 64%)
Gene names: EPT, LGI1, UNQ775/PRO1569
Sequence domains: EPTP domain

Ligands and Environments

Carbohydrate polymer : NEW Components: NAG
Carbohydrate polymer
Carbohydrate polymer : NEW Components: NAG, BMA, FUC
Carbohydrate polymer
Carbohydrate polymer : NEW Components: NAG, FUC
Carbohydrate polymer
Carbohydrate polymer : NEW Components: NAG, FUC
Carbohydrate polymer
2 bound ligands:
Ligand CA 24 x CA
Ligand NAG 2 x NAG
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SPRING-8 BEAMLINE BL41XU
Spacegroup: P1
Unit cell:
a: 83.579Å b: 83.608Å c: 293.543Å
α: 86.4° β: 88.17° γ: 59.95°
R-values:
R R work R free
0.246 0.244 0.279
Expression system: Mammalia

Quick links

Citations

8 review citations

Functions of 'A disintegrin and metalloproteases (ADAMs)' in the mammalian nervous system.
Hsia et al. (2019)
7 more

4 mentions without citation

Domain integration of ADAM family proteins: Emerging themes from structural studies.
Seegar et al. (2019)
3 more