Structure of synaptotagmin-1 with SV2A peptide phosphorylated at THR84

Structure

x-ray diffraction · 2 distinct chains · 16% helix, 43% strand (DSSP).

Ligands and binding sites

• CA · Calcium ion · metal · 3 copies · chains A
• GOL · Glycerol · additive · chains A

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

Interfaces

1 interface between chains.

• A–B · 399 Ų buried · 11 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 1 modified (phosphorylation).

Compared structures

• 4V11 · Structure of Synaptotagmin-1 with SV2A peptide phosphorylated at Thr84 · the same entry in another collection · chain A against A, TM-score 1.00
• P21579 · AlphaFold monomer V2.0 prediction for synaptotagmin-1 (P21579) · a predicted model of the same protein · chain A against A, TM-score 0.98
• Q7L0J3 · AlphaFold monomer V2.0 prediction for synaptic vesicle glycoprotein 2A (Q7L0J3) · a predicted model of the same protein · chain B against A, TM-score 0.33

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 P21579
• Every structure of UniProt Q7L0J3
• Elsewhere: RCSB PDB 4V11 · PDBe 4V11 · UniProt P21579 · UniProt Q7L0J3