SMTL ID : 2vt0.1 (1 other biounit)

X-ray structure of a conjugate with conduritol-beta-epoxide of acid-beta-glucosidase overexpressed in cultured plant cells

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.15 Å

Oligo State

monomer

Ligands

1 x NAG- NAG- MAN- FUC: alpha-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-MAN-FUC.1: 4 residues within 4Å: Chain A: I.7, N.21, T.23, Y.24 No protein-ligand interaction detected (PLIP)

1 x CBU: (1R,2R,3S,4S,5S,6S)-CYCLOHEXANE-1,2,3,4,5,6-HEXOL

CBU.2: 11 residues within 4Å: Chain A: D.129, F.130, W.181, N.236, E.237, F.248, Y.315, E.342, C.344, W.383, N.398 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:Y.315, A:E.342 Hydrogen bonds: A:D.129, A:D.129, A:W.181, A:N.236, A:N.398 Water bridges: A:E.237

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

SO4.3: 6 residues within 4Å: Chain A: Y.13, S.14, R.355, S.358, W.359, D.360 9 PLIP interactions: 9 interactions with chain A Hydrogen bonds: A:S.14, A:S.14, A:S.358, A:W.359, A:D.360 Water bridges: A:R.355, A:R.355, A:S.358 Salt bridges: A:R.355 SO4.4: 4 residues within 4Å: Chain A: K.81, W.230, R.279, H.308 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:W.230, A:E.431 Salt bridges: A:K.81, A:R.279, A:H.308 SO4.5: 4 residues within 4Å: Chain A: G.195, K.196, S.244, G.245 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:K.196, A:G.245 Water bridges: A:N.190, A:K.196 SO4.6: 2 residues within 4Å: Chain A: E.256, R.259 3 PLIP interactions: 3 interactions with chain A Water bridges: A:E.256, A:R.259 Salt bridges: A:R.259 SO4.7: 2 residues within 4Å: Chain A: R.46, S.47 3 PLIP interactions: 3 interactions with chain A Water bridges: A:R.46, A:S.47 Salt bridges: A:R.46 SO4.8: 3 residues within 4Å: Chain A: R.46, S.467, Y.489 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Y.489, A:Y.489 Salt bridges: A:R.46

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kacher, Y. et al., Acid Beta-Glucosidase: Insights from Structural Analysis and Relevance to Gaucher Disease Therapy. Biol.Chem. (2008)

Release Date

2008-09-23

Peptides

GLUCOSYLCERAMIDASE: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

GLUCOSYLCERAMIDASE

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