Clitocybe nebularis ricin B-like lectin (cnl) in complex with N,N'- diacetyllactosediamine

Structure

x-ray diffraction · 1 distinct chain · 8% helix, 43% strand (DSSP).

Ligands and binding sites

• Z3Q · 2-azidoethyl 2-acetamido-2-deoxy-beta-D-glucopyranoside · ligand · 2 copies · chains A, B
• NGA · 2-acetamido-2-deoxy-beta-D-galactopyranose · sugar · 2 copies · chains A, B
• SO4 · Sulfate ion · ion · 2 copies · chains A, B

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

Pockets

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

Interfaces

1 interface between chains.

• A–B · 648 Ų buried · 3 hydrogen bonds · protein-protein

Compared structures

• 3NBE · Clitocybe nebularis ricin B-like lectin (CNL) in complex with N,N'-diacetyllactosediamine · the same entry in another collection · chain A against A, TM-score 1.00
• B2ZRS9 · AlphaFold monomer V2.0 prediction for ricin B-like lectin (B2ZRS9) · a predicted model of the same protein · chain A against A, TM-score 0.96

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 B2ZRS9
• Elsewhere: RCSB PDB 3NBE · PDBe 3NBE · UniProt B2ZRS9