SMTL ID : 5y0v.1

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

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.42 Å

Oligo State

monomer

Ligands

1 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG-NAG.1: 6 residues within 4Å: Chain A: Y.110, R.132, S.136, N.142, T.144, T.146 No protein-ligand interaction detected (PLIP)

1 x BER: BERBERINE(Non-covalent)

BER.2: 7 residues within 4Å: Chain A: V.305, D.345, W.426, Y.453, W.461, V.462, W.468 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:W.468 pi-Stacking: A:W.468, A:W.468

1 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG.3: 6 residues within 4Å: Chain A: N.353, Q.359, L.369, D.370, K.371, F.374 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:F.374 Hydrogen bonds: A:N.353, A:L.369, A:L.369

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Duan, Y. et al., Glycoside hydrolase family 18 and 20 enzymes are novel targets of the traditional medicine berberine. J. Biol. Chem. (2018)

Release Date

2018-01-24

Peptides

Beta-hexosaminidase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Beta-hexosaminidase