SMTL ID : 3w37.1

Sugar beet alpha-glucosidase with acarbose

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.70 Å

Oligo State

monomer

Ligands

1 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: G.820, I.821, N.823, E.905 No protein-ligand interaction detected (PLIP)

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

NAG-FUC-NAG.2: 1 residues within 4Å: Chain A: N.404 No protein-ligand interaction detected (PLIP)

1 x GLC- GLC- AC1: 4,6-dideoxy-4-{[(1S,4R,5S,6S)-4,5,6-trihydroxy-3-(hydroxymethyl)cyclohex-2-en-1-yl]amino}-alpha-D-glucopyranose-(1-4)-alpha-D-glucopyranose-(1-4)-alpha-D-glucopyranose

GLC-GLC-AC1.3: 18 residues within 4Å: Chain A: D.232, I.233, A.234, F.236, N.237, W.329, D.357, I.358, I.396, W.432, W.467, D.469, M.470, R.552, W.565, D.568, F.601, H.626 12 PLIP interactions: 12 interactions with chain A Hydrophobic interactions: A:W.329, A:W.432, A:F.601 Hydrogen bonds: A:D.232, A:D.469, A:D.469, A:R.552, A:R.552, A:D.568, A:H.626, A:H.626 Water bridges: A:D.568

3 x ACY: ACETIC ACID(Non-functional Binders)

ACY.4: 3 residues within 4Å: Chain A: R.720, S.736, A.737 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:A.737 Salt bridges: A:R.720 ACY.6: 6 residues within 4Å: Chain A: T.681, F.682, R.699, H.755, E.756, N.758 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:H.755 Water bridges: A:H.755, A:E.756 Salt bridges: A:H.755 ACY.10: 3 residues within 4Å: Chain A: V.733, S.734, V.741 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:S.734

3 x GOL: GLYCEROL(Non-functional Binders)

GOL.5: 3 residues within 4Å: Chain A: F.727, N.728, Y.729 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Y.729 GOL.8: 3 residues within 4Å: Chain A: T.730, S.731, S.732 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.732, A:S.732 GOL.11: 4 residues within 4Å: Chain A: T.368, L.369, L.376, I.460 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:L.369, A:L.369 Water bridges: A:L.376

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

SO4.7: 4 residues within 4Å: Chain A: E.301, R.670, R.676, R.699 10 PLIP interactions: 10 interactions with chain A Hydrogen bonds: A:E.301 Water bridges: A:R.670, A:R.676, A:R.676, A:R.676, A:R.676, A:R.699 Salt bridges: A:R.670, A:R.676, A:R.699

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

NAG.9: 3 residues within 4Å: Chain A: N.728, T.730, S.731 1 PLIP interactions: 1 interactions with chain A Water bridges: A:N.728

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Tagami, T. et al., Molecular basis for the recognition of long-chain substrates by plant & alpha-glucosidase. J.Biol.Chem. (2013)

Release Date

2013-05-29

Peptides

Alpha-glucosidase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Alpha-glucosidase

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