› 5y0v

X-ray diffraction
2.42Å resolution

Crystal Structure of insect beta-N-acetyl-D-hexosaminidase OfHex1 complexed with berberine

Released:
DOI: 10.2210/pdb5y0v/pdb
PDB entry 5y0v coloured by chain, front view.
PDB entry 5y0v coloured by chain, side view.
PDB entry 5y0v coloured by chain, top view.
Source organism: Ostrinia furnacalis
Primary publication:
Glycoside hydrolase family 18 and 20 enzymes are novel targets of the traditional medicine berberine.
Duan Y, Liu T, Zhou Y, Dou T, Yang Q
J Biol Chem 293 15429-15438 (2018)
PMID: 30135205

Function and Biology Details

Reaction catalysed: 
Hydrolysis of terminal non-reducing N-acetyl-D-hexosamine residues in N-acetyl-beta-D-hexosaminides
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-170422 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecules (2 distinct):
Chitooligosaccharidolytic beta-N-acetylglucosaminidase Chain: A
Molecule details ›
Chain: A
Length: 578 amino acids
Theoretical weight: 66.38 KDa
Source organism: Ostrinia furnacalis
Expression system: Komagataella phaffii GS115
UniProt:
  • Canonical: Q06GJ0 (Residues: 23-594; Coverage: 100%)
Sequence domains:
Structure domains:

Ligands and Environments

Carbohydrate polymer : NEW Components: NAG
Carbohydrate polymer
2 bound ligands:
Ligand BER 1 x BER
Ligand NAG 1 x NAG
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SSRF BEAMLINE BL19U1
Spacegroup: P3221
Unit cell:
a: 107.821Å b: 107.821Å c: 175.098Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.18 0.179 0.203
Expression system: Komagataella phaffii GS115

Quick links

Citations

2 review citations

Chitotriosidase: a marker and modulator of lung disease.
Chang et al. (2020)
1 more

2 mentions without citation

Review on Structures of Pesticide Targets.
Li et al. (2020)
1 more