SMTL ID : 8p41.1 (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: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG.1: 4 residues within 4Å: Chain A: I.5, N.19, T.21, Y.22 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.19

6 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 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:S.12, A:S.12, A:S.356, A:W.357, A:D.358 Water bridges: A:R.353 Salt bridges: A:R.353 SO4.3: 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 SO4.4: 4 residues within 4Å: Chain A: G.193, K.194, S.242, G.243 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:K.194, A:G.243 Water bridges: A:N.188, A:N.192 SO4.5: 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 SO4.6: 3 residues within 4Å: Chain A: M.361, H.365, R.463 2 PLIP interactions: 2 interactions with chain A Water bridges: A:S.366 Salt bridges: A:H.365 SO4.7: 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

2 x WYC: 2-[2-[[3,5-bis(trifluoromethyl)phenyl]methylsulfanyl]ethanoylamino]-5-chloranyl-benzoic acid(Non-covalent)

WYC.8: 5 residues within 4Å: Chain A: D.315, F.316, L.317, W.348 Ligands: WYC.9 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:F.316 Hydrogen bonds: A:L.317 WYC.9: 7 residues within 4Å: Chain A: D.315, F.316, S.345, K.346, F.347, W.348 Ligands: WYC.8 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:F.316, A:F.347 Hydrogen bonds: A:F.347

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
A

Glucosylceramidase

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