Crystal structure of the alpha-adaptin appendage domain, from the AP2 adaptor complex, bound to 2 peptides from SYNAPTOJANIN170

Structure

x-ray diffraction · 3 distinct chains · 20% helix, 40% strand (DSSP).

Ligands and binding sites

• BEN · Benzamidine · ligand · chains A
• CO3 · Carbonate ion · ion · 3 copies · chains A, Q
• SO4 · Sulfate ion · ion · chains A
• DTD · Dithiane diol · additive · chains A

Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.

Interfaces

2 interfaces between chains.

• A–Q · 591 Ų buried · 9 hydrogen bonds · protein-protein
• A–P · 374 Ų buried · 5 hydrogen bonds · protein-protein

Compared structures

• 1W80 · Crystal structure of the alpha-adaptin appendage domain, from the AP2 adaptor complex… · the same entry in another collection · chain A against A, TM-score 1.00
• P17427 · AlphaFold monomer V2.0 prediction for ap-2 complex subunit alpha-2 (P17427) · a predicted model of the same protein · chain A against A, TM-score 0.97
• O43426 · AlphaFold monomer V2.0 prediction for synaptojanin-1 (O43426) · a predicted model of the same protein · chain P against A, TM-score 0.52

Analyse

• Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
• Every structure of UniProt P17427
• Every structure of UniProt O43426
• Elsewhere: RCSB PDB 1W80 · PDBe 1W80 · UniProt P17427 · UniProt O43426