› 3axa

X-ray diffraction
2.78Å resolution

Crystal structure of afadin PDZ domain in complex with the C-terminal peptide from nectin-3

Released:
DOI: 10.2210/pdb3axa/pdb
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PDB entry 3axa coloured by chain, front view.
PDB entry 3axa coloured by chain, side view.
PDB entry 3axa coloured by chain, top view.
Source organism: Mus musculus
Primary publication:
Crystal structure of afadin PDZ domain-nectin-3 complex shows the structural plasticity of the ligand-binding site.
Fujiwara Y, Goda N, Tamashiro T, Narita H, Satomura K, Tenno T, Nakagawa A, Oda M, Suzuki M, Sakisaka T, Takai Y, Hiroaki H
Protein Sci 24 376-85 (2015)
PMID: 25534554

Function and Biology Details

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

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-191636 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Afadin; Nectin-3 Chains: A, B
Molecule details ›
Chains: A, B
Length: 106 amino acids
Theoretical weight: 11.1 KDa
Source organism: Mus musculus
Expression system: Escherichia coli
UniProt:
  • Canonical: Q9QZQ1 (Residues: 1003-1095; Coverage: 5%)
  • Canonical: Q9JLB9 (Residues: 544-549; Coverage: 1%)
Gene names: Af6, Afdn, Mllt4, Nectin3, Pvrl3
Sequence domains: PDZ domain
Structure domains: Pdz3 Domain

Ligands and Environments

No bound ligands
No modified residues

Experiments and Validation Details

wwPDB Validation report is not available for this entry.
X-ray source: PHOTON FACTORY BEAMLINE BL-17A
Spacegroup: C2221
Unit cell:
a: 55.477Å b: 90.481Å c: 88.745Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.241 0.24 0.263
Expression system: Escherichia coli

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Citations

2 review citations

The Ins and Outs of RAS Effector Complexes.
Kiel et al. (2021)
1 more

3 mentions without citation

Multivalent interactions make adherens junction-cytoskeletal linkage robust during morphogenesis.
Perez-Vale et al. (2021)
2 more

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