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

X-RAY STRUCTURE OF ACID-BETA-GLUCOSIDASE WITH 5N,6O-(N'-(N-OCTYL)IMINO)NOJIRIMYCIN IN THE ACTIVE SITE

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.66 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 No protein-ligand interaction detected (PLIP)

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

1 x LGS: (3Z,5S,6R,7S,8R,8aR)-3-(octylimino)hexahydro[1,3]oxazolo[3,4-a]pyridine-5,6,7,8-tetrol(Non-covalent)

LGS.7: 13 residues within 4Å: Chain A: D.129, F.130, W.181, N.236, E.237, Y.246, F.248, Q.286, Y.315, E.342, S.347, W.383, N.398 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:W.181, A:N.236, A:E.237, A:W.383, A:N.398

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Brumshtein, B. et al., Cyclodextrin-Mediated Crystallization of Acid Beta-Glucosidase in Complex with Amphiphilic Bicyclic Nojirimycin Analogues. Org.Biomol.Chem. (2011)

Release Date

2011-09-14

Peptides

GLUCOSYLCERAMIDASE: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

GLUCOSYLCERAMIDASE

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