Research workbench

Extended-Synaptotagmin 2, C2A- and C2B-domains, calcium bound

Analyse Extended-Synaptotagmin 2, C2A- and C2B-domains, calcium bound in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 4NPK
Type: protein
Length: 269 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v2 / PDB Bank
Contract: 0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
Owner: 0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
Resolution: 2.552
Source: Homo sapiens
Molecule: Extended synaptotagmin-2
UniProt: A0FGR8
Ligands: CA
Pockets: 2 · best druggability 0.38

Structure

x-ray diffraction · resolution 2.552 · 1 distinct chain · 10% helix, 51% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Extended synaptotagmin-2	protein	269	10% helix, 51% strand	A0FGR8

Ligands and binding sites

CA · Calcium ion · metal · 3 copies · chains A

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

Pockets

2 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	75	0.38	0.78	14	empty
2	65	0.29	0.73	15	empty

Compared structures

4NPK · Extended-synaptotagmin 2, C2A- and C2B-domains, calcium bound · the same entry in another collection · chain A against A, TM-score 1.00
A0FGR8 · AlphaFold monomer V2.0 prediction for extended synaptotagmin-2 (A0FGR8) · a predicted model of the same protein · chain A against A, TM-score 0.98

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 A0FGR8
Elsewhere: RCSB PDB 4NPK · PDBe 4NPK · UniProt A0FGR8

GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.