› 5oj6

X-ray diffraction
3.3Å resolution

Crystal structure of the chicken MDGA1 ectodomain in complex with the human neuroligin 1 (NL1(-A-B)) cholinesterase domain.

Released:
DOI: 10.2210/pdb5oj6/pdb
PDB entry 5oj6 coloured by chain, front view.
PDB entry 5oj6 coloured by chain, side view.
PDB entry 5oj6 coloured by chain, top view.
Source organisms:
Primary publication:
Structural Mechanism for Modulation of Synaptic Neuroligin-Neurexin Signaling by MDGA Proteins.
Elegheert J, Cvetkovska V, Clayton AJ, Heroven C, Vennekens KM, Smukowski SN, Regan MC, Jia W, Smith AC, Furukawa H, Savas JN, de Wit J, Begbie J, Craig AM, Aricescu AR
Neuron 95 896-913.e10 (2017)
PMID: 28817804

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero tetramer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-171197 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (3 distinct):
Neuroligin-1 Chain: A
Molecule details ›
Chain: A
Length: 575 amino acids
Theoretical weight: 64.4 KDa
Source organism: Homo sapiens
Expression system: Homo sapiens
UniProt:
  • Canonical: Q8N2Q7 (Residues: 46-658; Coverage: 69%)
Gene names: KIAA1070, NLGN1
Sequence domains: Carboxylesterase family
Structure domains: alpha/beta hydrolase
MAM domain-containing glycosylphosphatidylinositol anchor protein 1 Chain: B
Molecule details ›
Chain: B
Length: 910 amino acids
Theoretical weight: 102.14 KDa
Source organism: Gallus gallus
Expression system: Homo sapiens
UniProt:
  • Canonical: Q0WYX8 (Residues: 19-919; Coverage: 97%)
Gene name: MDGA1
Sequence domains:

Ligands and Environments

Carbohydrate polymer : NEW Components: NAG, BMA
Carbohydrate polymer
1 bound ligand:
Ligand NAG 8 x NAG
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: DIAMOND BEAMLINE I04-1
Spacegroup: P21212
Unit cell:
a: 109.42Å b: 184.14Å c: 96.47Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.229 0.227 0.277
Expression system: Homo sapiens

Quick links

Citations

12 review citations

Synaptic Neurexin Complexes: A Molecular Code for the Logic of Neural Circuits.
Südhof TC. (2017)
11 more

3 mentions without citation

Structural Mechanism for Modulation of Synaptic Neuroligin-Neurexin Signaling by MDGA Proteins.
Elegheert et al. (2017)
2 more