› 5y1b

X-ray diffraction
2.21Å resolution

Crystal Structure of insect beta-N-acetyl-D-hexosaminidase OfHex1 complexed with a berberine derivative (SYSU-00679)

Released:
DOI: 10.2210/pdb5y1b/pdb
PDB entry 5y1b coloured by chain, front view.
PDB entry 5y1b coloured by chain, side view.
PDB entry 5y1b 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

Assemblies composition:
monomeric (preferred)
homo dimer
Assembly name:
PDBe Complex ID:
PDB-CPX-554935 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
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

2 bound ligands:
Ligand NAG 2 x NAG
Ligand 8KL 1 x 8KL
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SSRF BEAMLINE BL19U1
Spacegroup: P3221
Unit cell:
a: 107.983Å b: 107.983Å c: 175.529Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.172 0.171 0.192
Expression system: Komagataella phaffii GS115

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Citations

3 review citations

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

2 mentions without citation

Glycoside hydrolase family 18 and 20 enzymes are novel targets of the traditional medicine berberine.
Duan et al. (2018)
1 more