SMTL ID : 1uh4.1

Thermoactinomyces vulgaris R-47 alpha-amylase 1/malto-tridecaose complex

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

monomer

Ligands

1 x GLC- GLC- GLC: alpha-D-glucopyranose-(1-4)-alpha-D-glucopyranose-(1-4)-alpha-D-glucopyranose

GLC-GLC-GLC.1: 15 residues within 4Å: Chain A: S.182, H.221, Y.223, H.267, F.310, F.313, L.316, R.354, N.356, A.357, Q.396, H.471, D.472, D.516, R.520 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.182, A:D.516

1 x GLC- GLC- GLC- GLC- GLC: alpha-D-glucopyranose-(1-4)-alpha-D-glucopyranose-(1-4)-alpha-D-glucopyranose-(1-4)-alpha-D-glucopyranose-(1-4)-alpha-D-glucopyranose

GLC-GLC-GLC-GLC-GLC.2: 12 residues within 4Å: Chain A: W.51, F.58, Y.89, R.91, N.114, A.115, D.116, D.117, Y.119, N.402, P.403, A.406 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.116, A:D.116

1 x GLC- BGC- BGC: beta-D-glucopyranose-(1-4)-beta-D-glucopyranose-(1-4)-alpha-D-glucopyranose

GLC-BGC-BGC.3: 5 residues within 4Å: Chain A: N.400, D.418, W.448, T.452, N.455 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:N.400, A:D.418, A:N.455 Water bridges: A:D.116, A:D.418

1 x GLC- GLC- GLC- GLC- GLC- GLC: alpha-D-glucopyranose-(1-4)-alpha-D-glucopyranose-(1-4)-alpha-D-glucopyranose-(1-4)-alpha-D-glucopyranose-(1-4)-alpha-D-glucopyranose-(1-4)-alpha-D-glucopyranose

GLC-GLC-GLC-GLC-GLC-GLC.4: 8 residues within 4Å: Chain A: N.3, K.40, G.41, I.43, T.44, W.65, N.68, D.75 No protein-ligand interaction detected (PLIP)

1 x GLC: alpha-D-glucopyranose(Non-covalent)

GLC.5: 5 residues within 4Å: Chain A: W.485, S.587, S.589, D.628, G.629 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:G.629, A:H.630

3 x CA: CALCIUM ION(Non-covalent)

CA.6: 5 residues within 4Å: Chain A: A.2, D.4, N.6, D.42, D.96 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:A.2, A:N.6, A:D.42, A:D.42, A:D.96 CA.7: 6 residues within 4Å: Chain A: N.145, D.147, N.150, D.151, G.187, D.189 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.147, A:D.151, A:G.187, A:D.189, H2O.3 CA.8: 5 residues within 4Å: Chain A: D.276, N.279, F.281, S.283, E.288 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.276, A:F.281, A:S.283, A:E.288, H2O.29

1 x MPD: (4S)-2-METHYL-2,4-PENTANEDIOL(Non-functional Binders)

MPD.9: 5 residues within 4Å: Chain A: D.446, T.558, L.559, I.560, T.561 1 PLIP interactions: 1 interactions with chain A Water bridges: A:N.10

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Abe, A. et al., Complex Structures of Thermoactinomyces vulgaris R-47 alpha-Amylase 1 with Malto-oligosaccharides Demonstrate the Role of Domain N Acting as a Starch-binding Domain. J.Mol.Biol. (2004)

Release Date

2004-01-13

Peptides

alpha-amylase I: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

alpha-amylase I

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