SMTL ID : 2nt0.3 (3 other biounits)

Acid-beta-glucosidase low pH, glycerol bound

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.79 Å

Oligo State

monomer

Ligands

1 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Non-covalent)

NAG.1: 4 residues within 4Å: Chain A: I.5, N.19, T.21, Y.22 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:T.21 Hydrogen bonds: A:N.19, A:T.21

3 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 11 PLIP interactions: 11 interactions with chain A Hydrogen bonds: A:S.12, A:S.12, A:W.357, A:D.358 Water bridges: A:S.356, A:D.358, A:D.358, A:D.358, A:D.358, A:D.358 Salt bridges: A:R.353 SO4.3: 4 residues within 4Å: Chain A: K.79, W.228, R.277, H.306 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:W.228 Water bridges: A:K.79, A:K.79 Salt bridges: A:K.79, A:R.277, A:H.306 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

5 x GOL: GLYCEROL(Non-functional Binders)

GOL.5: 3 residues within 4Å: Chain A: F.75, H.328, H.374 2 PLIP interactions: 2 interactions with chain A Water bridges: A:H.328, A:H.374 GOL.6: 9 residues within 4Å: Chain A: D.127, F.128, W.179, N.234, E.235, Y.313, E.340, W.381, F.397 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:W.179, A:N.234, A:E.235, A:Y.313 GOL.7: 7 residues within 4Å: Chain A: R.2, D.24, S.25, F.26, R.48, M.49, Y.418 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:R.2, A:D.24, A:M.49 Water bridges: A:D.24, A:L.51, A:K.413 GOL.8: 5 residues within 4Å: Chain A: L.288, P.289, H.290, K.293 Ligands: GOL.9 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.293 Water bridges: A:H.290 GOL.9: 3 residues within 4Å: Chain A: H.290, K.293 Ligands: GOL.8 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:H.290, A:K.293

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lieberman, R.L. et al., Structure of acid beta-glucosidase with pharmacological chaperone provides insight into Gaucher disease. Nat.Chem.Biol. (2007)

Release Date

2006-12-26

Peptides

Glucosylceramidase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

Glucosylceramidase

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