SMTL ID : 8p41.2 (1 other biounit)

Crystal structure of glucocerebrosidase in complex with allosteric activator

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.83 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: 5 residues within 4Å: Chain A: R.2, I.5, N.19, T.21, Y.22 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:Y.22

10 x SO4: SULFATE ION(Non-functional Binders)

SO4.2: 6 residues within 4Å: Chain A: Y.11, S.12, R.353, S.356, W.357, D.358 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:S.12, A:S.12, A:S.356, A:W.357, A:D.358 Salt bridges: A:R.353 SO4.3: 5 residues within 4Å: Chain A: Y.11, W.348, E.349, Q.350, R.353 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Y.11, A:Q.350 Salt bridges: A:R.353 SO4.4: 2 residues within 4Å: Chain A: R.44, S.45 3 PLIP interactions: 3 interactions with chain A Water bridges: A:R.44, A:S.45 Salt bridges: A:R.44 SO4.5: 2 residues within 4Å: Chain A: R.44, Y.487 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Y.487 Salt bridges: A:R.44 SO4.6: 4 residues within 4Å: Chain A: R.285, P.319, A.320, T.369 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:A.320 Water bridges: A:R.285, A:R.285, A:K.321 Salt bridges: A:R.285 SO4.7: 3 residues within 4Å: Chain A: T.63, G.64, Q.440 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Q.440 Water bridges: A:T.63 SO4.8: 2 residues within 4Å: Chain A: R.170, P.428 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:R.170 SO4.9: 4 residues within 4Å: Chain A: K.79, W.228, R.277, H.306 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:W.228 Water bridges: A:K.79 Salt bridges: A:K.79, A:R.277, A:H.306 SO4.10: 2 residues within 4Å: Chain A: E.254, R.257 4 PLIP interactions: 4 interactions with chain A Water bridges: A:E.254, A:E.254, A:R.257 Salt bridges: A:R.257 SO4.11: 2 residues within 4Å: Chain A: R.329, L.330 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:R.329

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Schulze, M.E.D. et al., Identification of ss-Glucocerebrosidase Activators for Glucosylceramide hydrolysis. Chemmedchem (2024)

Release Date

2024-03-06

Peptides

Glucosylceramidase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

Glucosylceramidase

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