SMTL ID : 1rpk.1

Crystal structure of barley alpha-amylase isozyme 1 (amy1) in complex with acarbose

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

monomer

Ligands

2 x GLC- DAF: 4,6-dideoxy-4-{[(1S,5R,6S)-3-formyl-5,6-dihydroxy-4-oxocyclohex-2-en-1-yl]amino}-alpha-D-xylo-hex-5-enopyranose-(1-4)-alpha-D-glucopyranose(Non-covalent)

GLC-DAF.1: 15 residues within 4Å: Chain A: W.10, Y.52, H.93, F.144, R.178, D.180, F.181, R.183, E.205, W.207, D.208, N.209, H.290, D.291, M.298 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:R.178, A:R.178, A:F.181, A:R.183, A:E.205, A:E.205, A:D.291, A:R.183, A:W.207, A:N.209 Water bridges: A:E.205, A:W.207, A:N.209, A:M.210 GLC-DAF.3: 5 residues within 4Å: Chain A: Q.227, V.230, D.234, W.278, W.279 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:W.279 Hydrogen bonds: A:D.234, A:Q.227, A:Q.227, A:K.271, A:W.278 Water bridges: A:D.234

1 x GLC- GLC- DAF: 4,6-dideoxy-4-{[(1S,5R,6S)-3-formyl-5,6-dihydroxy-4-oxocyclohex-2-en-1-yl]amino}-alpha-D-xylo-hex-5-enopyranose-(1-4)-alpha-D-glucopyranose-(1-4)-alpha-D-glucopyranose

GLC-GLC-DAF.2: 13 residues within 4Å: Chain A: K.375, Y.380, D.381, V.382, G.383, T.392, H.395, G.396, N.397, D.398, Y.399, A.400, W.402 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:W.402 Hydrogen bonds: A:K.375, A:Y.380, A:D.381, A:D.381, A:V.382, A:G.383, A:H.395, A:D.398, A:Y.399, A:H.395, A:D.398, A:D.398 Water bridges: A:K.375, A:T.392

3 x CA: CALCIUM ION(Non-covalent)

CA.4: 5 residues within 4Å: Chain A: N.92, D.139, A.142, D.149, G.184 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.139, A:A.142, A:D.149, A:G.184, H2O.1 CA.5: 4 residues within 4Å: Chain A: E.109, T.112, D.114, D.118 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:E.109, A:E.109, A:T.112, A:D.114, A:D.118 CA.6: 6 residues within 4Å: Chain A: D.128, D.143, F.144, A.147, P.148, D.149 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.128, A:F.144, A:A.147, A:D.149, H2O.4

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Robert, X. et al., Oligosaccharide Binding to Barley {alpha}-Amylase 1. J.Biol.Chem. (2005)

Release Date

2005-06-07

Peptides

Alpha-amylase type 1 isozyme: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Alpha-amylase type 1 isozyme

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