SMTL ID : 4ufm.1

Mouse Galactocerebrosidase complexed with 1-deoxy-galacto-nojirimycin DGJ

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.40 Å

Oligo State

monomer

Ligands

3 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG-NAG.1: 4 residues within 4Å: Chain A: R.23, K.234, I.267, N.270 No protein-ligand interaction detected (PLIP) NAG-NAG.2: 4 residues within 4Å: Chain A: D.345, L.347, N.349, L.439 No protein-ligand interaction detected (PLIP) NAG-NAG.3: 7 residues within 4Å: Chain A: N.528, K.606, G.607, Y.608, Y.627, A.653, R.654 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:Y.608

1 x DGJ: (2R,3S,4R,5S)-2-(hydroxymethyl)piperidine-3,4,5-triol(Non-covalent)

DGJ.4: 13 residues within 4Å: Chain A: G.34, T.78, T.79, W.121, N.167, E.168, Y.224, E.244, S.247, W.277, Y.289, R.366, W.510 10 PLIP interactions: 10 interactions with chain A Hydrogen bonds: A:T.79, A:T.79, A:W.121, A:N.167, A:E.168, A:E.244, A:S.247, A:Y.289, A:R.366, A:R.366

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

NAG.5: 3 residues within 4Å: Chain A: Y.371, N.373, S.375 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:Y.371 Hydrogen bonds: A:N.373

1 x CA: CALCIUM ION(Non-covalent)

CA.6: 4 residues within 4Å: Chain A: D.463, N.465, F.497, D.646 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.463, A:F.497, A:D.646, A:D.646, H2O.7

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Hill, C.H. et al., Azasugar Inhibitors as Pharmacological Chaperones for Krabbe Disease. Chem.Sci. (2015)

Release Date

2015-04-01

Peptides

GALACTOCEREBROSIDASE: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

GALACTOCEREBROSIDASE

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