MolNFT v1 · #84851 · protein

Complex of lysenin with phosphocholine

3ZX7: “Complex of lysenin with phosphocholine”. X-ray diffraction, 3 ligands (PC, NA, PO4), 1 pocket (best druggability 0.37). MolNFT v1 #84851 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 3ZX7
Type: protein
Length: 296 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Lysenin
UniProt: O18423
Ligands: PC, NA, PO4
Pockets: 1 · best druggability 0.37

Structure

x-ray diffraction · 1 distinct chain · 2% helix, 55% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Lysenin	protein	296	2% helix, 55% strand	O18423

Ligands and binding sites

PC · Phosphocholine · ligand · 4 copies · chains A
NA · Sodium ion · metal · 3 copies · chains A
PO4 · Phosphate ion · ion · 5 copies · chains A

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

Pockets

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

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	68	0.37	0.78	19	empty

Modifications

Observed in the structure: 6 modified (engineered).

Compared structures

3ZX7 · Complex of lysenin with phosphocholine · the same entry in another collection · chain A against A, TM-score 1.00
O18423 · AlphaFold monomer V2.0 prediction for lysenin (O18423) · a predicted model of the same protein · chain A against A, TM-score 0.58

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 O18423
Elsewhere: RCSB PDB 3ZX7 · PDBe 3ZX7 · UniProt O18423

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