SMTL ID : 1p6w.1

Crystal structure of barley alpha-amylase isozyme 1 (AMY1) in complex with the substrate analogue, methyl 4I,4II,4III-tri-thiomaltotetraoside (thio-DP4)

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

monomer

Ligands

1 x GTM- SGC- SGC- BGC: beta-D-glucopyranose-(1-4)-4-thio-beta-D-glucopyranose-(1-4)-4-thio-beta-D-glucopyranose-(1-4)-methyl 4-thio-beta-D-glucopyranoside

GTM-SGC-SGC-BGC.1: 14 residues within 4Å: Chain A: K.375, R.379, Y.380, D.381, V.382, G.383, T.392, H.395, G.396, N.397, D.398, Y.399, A.400, W.402 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:Y.380, A:Y.380, A:H.395, A:N.397, A:D.398, A:D.398, A:D.381, A:D.381, A:V.382, A:G.383, A:T.392 Water bridges: A:T.392

2 x SGC- GLC: alpha-D-glucopyranose-(1-4)-4-thio-beta-D-glucopyranose(Non-covalent)

SGC-GLC.2: 5 residues within 4Å: Chain A: Q.227, V.230, D.234, W.278, W.279 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Q.227, A:Q.227, A:D.234 Water bridges: A:Q.227, A:W.278, A:W.278 SGC-GLC.3: 4 residues within 4Å: Chain A: S.303, D.304, N.329, W.330 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:W.330 Water bridges: A:D.304, A:D.304

4 x CA: CALCIUM ION(Non-covalent)(Non-functional Binders)

CA.4: 6 residues within 4Å: Chain A: N.92, D.139, G.141, A.142, D.149, G.184 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.139, A:D.139, A:A.142, A:D.149, H2O.2 CA.5: 4 residues within 4Å: Chain A: E.109, T.112, D.114, D.118 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:E.109, A:T.112, A:D.114, A:D.118, H2O.1 CA.6: 5 residues within 4Å: Chain A: D.128, D.143, F.144, A.147, D.149 6 PLIP interactions: 5 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.128, A:D.143, A:F.144, A:A.147, A:D.149, H2O.5 CA.7: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Robert, X. et al., The structure of barley alpha-amylase isozyme 1 reveals a novel role of domain C in substrate recognition and binding: a pair of sugar tongs. Structure (2003)

Release Date

2003-10-14

Peptides

PROTEIN (Alpha-amylase type A isozyme): A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

PROTEIN (Alpha-amylase type A isozyme)

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