SMTL ID : 2v3d.2 (1 other biounit)

acid-beta-glucosidase with N-butyl-deoxynojirimycin

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.96 Å

Oligo State

monomer

Ligands

1 x NAG- NAG- BMA- FUC: beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-[alpha-L-fucopyranose-(1-3)]2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-BMA-FUC.1: 4 residues within 4Å: Chain A: I.7, N.21, T.23, Y.24 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:Y.24

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

SO4.2: 6 residues within 4Å: Chain A: Y.13, S.14, R.355, S.358, W.359, D.360 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:S.14, A:S.14, A:W.359, A:D.360 Water bridges: A:S.358 Salt bridges: A:R.355 SO4.5: 5 residues within 4Å: Chain A: K.81, W.230, R.279, H.308, E.431 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:E.431 Water bridges: A:K.81, A:E.431 Salt bridges: A:K.81, A:R.279, A:H.308 SO4.6: 3 residues within 4Å: Chain A: R.287, H.367, T.371 6 PLIP interactions: 6 interactions with chain A Water bridges: A:R.287, A:R.287, A:R.287, A:R.287 Salt bridges: A:R.287, A:H.367 SO4.7: 4 residues within 4Å: Chain A: G.195, K.196, S.244, G.245 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:K.196, A:G.245 Water bridges: A:N.194, A:N.194, A:N.194, A:G.245

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

NAG.3: 3 residues within 4Å: Chain A: T.140, H.147, N.148 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:T.140 Water bridges: A:N.148

1 x NBV: (2R,3R,4R,5S)-1-BUTYL-2-(HYDROXYMETHYL)PIPERIDINE-3,4,5-TRIOL(Non-covalent)

NBV.4: 12 residues within 4Å: Chain A: D.129, F.130, W.181, N.236, E.237, F.248, Q.286, Y.315, E.342, S.347, W.383, N.398 13 PLIP interactions: 13 interactions with chain A Hydrophobic interactions: A:Y.315, A:Y.315 Hydrogen bonds: A:D.129, A:W.181, A:N.236, A:N.398, A:N.398 Water bridges: A:E.237, A:S.347, A:N.398 Salt bridges: A:E.237, A:E.342 pi-Cation interactions: A:Y.315

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Brumshtein, B. et al., Crystal Structures of Complexes of N-Butyl- and N-Nonyl-Deoxynojirimycin Bound to Acid Beta-Glucosidase: Insights Into the Mechanism of Chemical Chaperone Action in Gaucher Disease. J.Biol.Chem. (2007)

Release Date

2007-08-14

Peptides

GLUCOSYLCERAMIDASE: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

GLUCOSYLCERAMIDASE

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