SMTL ID : 3vx0.1

Crystal Structure of alpha-amylase from Aspergillus oryzae

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.50 Å

Oligo State

monomer

Ligands

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

NAG.1: 5 residues within 4Å: Chain A: Y.88, W.190, S.193, L.194, N.197 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:Y.88 Hydrogen bonds: A:N.197 Water bridges: A:S.193

6 x GD: GADOLINIUM ATOM(Non-covalent)

GD.2: 3 residues within 4Å: Chain A: D.233, D.235 Ligands: GD.3 5 PLIP interactions: 2 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:D.233, A:D.235, H2O.23, H2O.23, H2O.23 GD.3: 3 residues within 4Å: Chain A: E.156, D.233 Ligands: GD.2 3 PLIP interactions: 1 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.233, H2O.23, H2O.23 GD.4: 2 residues within 4Å: Chain A: S.281, D.282 5 PLIP interactions: 1 interactions with chain A, 4 Ligand-Water interactions Metal complexes: A:D.282, H2O.23, H2O.23, H2O.23, H2O.23 GD.5: 1 residues within 4Å: Chain A: D.50 5 PLIP interactions: 1 interactions with chain A, 4 Ligand-Water interactions Metal complexes: A:D.50, H2O.14, H2O.23, H2O.23, H2O.23 GD.6: 1 residues within 4Å: Chain A: D.47 5 PLIP interactions: 5 Ligand-Water interactions Metal complexes: H2O.23, H2O.23, H2O.23, H2O.23, H2O.23 GD.7: 3 residues within 4Å: Chain A: D.206, T.207, E.230 5 PLIP interactions: 2 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:D.206, A:E.230, H2O.1, H2O.23, H2O.23

1 x CA: CALCIUM ION(Non-covalent)

CA.8: 4 residues within 4Å: Chain A: N.121, E.162, D.175, H.210 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:E.162, A:D.175, A:H.210, H2O.3, H2O.5

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Sugahara, M., Crystal Structure of alpha-amylase from Aspergillus oryzae. To be Published

Release Date

2013-09-11

Peptides

Alpha-amylase A type-1/2: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Alpha-amylase A type-1/2

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