SMTL ID : 1wo2.1

Crystal structure of the pig pancreatic alpha-amylase complexed with malto-oligosaacharides under the effect of the chloride ion

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.01 Å

Oligo State

monomer

Ligands

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

BGC-GLC-GLC.1: 16 residues within 4Å: Chain A: W.58, W.59, Y.62, Q.63, H.101, G.104, L.162, V.163, L.165, R.195, D.197, A.198, E.233, H.299, D.300 Ligands: EDO.8 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Y.62, A:R.195, A:A.198, A:E.233, A:H.299, A:H.299, A:Q.63, A:Q.63 Salt bridges: A:R.195 BGC-GLC-GLC.2: 7 residues within 4Å: Chain A: K.261, E.272, Y.276, N.279, G.283, W.284, G.285 2 PLIP interactions: 2 interactions with chain A Water bridges: A:Y.276 Hydrogen bonds: A:K.261, A:K.261

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

BGC-GLC.3: 10 residues within 4Å: Chain A: A.318, K.322, D.375, T.376, T.377, R.387, W.388, R.389, E.390, R.392 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:K.322, A:K.322, A:K.322, A:T.376, A:T.376, A:R.389, A:R.389, A:R.389, A:E.390, A:R.392 Water bridges: A:R.343, A:R.343, A:R.343, A:V.383, A:W.388, A:E.390

1 x CL: CHLORIDE ION(Non-functional Binders)

CL.4: 5 residues within 4Å: Chain A: R.195, E.233, F.256, N.298, R.337 Ligand excluded by PLIP

1 x CA: CALCIUM ION(Non-covalent)

CA.5: 4 residues within 4Å: Chain A: N.100, R.158, D.167, H.201 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:R.158, A:D.167, A:H.201, H2O.1, H2O.2

6 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.6: 4 residues within 4Å: Chain A: K.466, V.467, Y.468 Ligands: EDO.7 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.466, A:Y.468 EDO.7: 7 residues within 4Å: Chain A: I.465, K.466, V.467, Q.476, F.477, S.478 Ligands: EDO.6 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.478, A:S.478 EDO.8: 6 residues within 4Å: Chain A: I.49, V.51, W.59, Q.63, A.107 Ligands: BGC-GLC-GLC.1 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Q.63 EDO.9: 4 residues within 4Å: Chain A: R.30, I.372, T.376, R.387 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.30, A:R.387, A:R.387 Water bridges: A:T.376 EDO.10: 5 residues within 4Å: Chain A: Q.1, L.211, R.227, P.228, I.230 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:L.211, A:R.227, A:P.228 EDO.11: 3 residues within 4Å: Chain A: R.56, R.72, T.114 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.56, A:R.56 Water bridges: A:G.365

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Qian, M. et al., Molecular Basis of the Effects of Chloride Ion on the Acid-Base Catalyst in the Mechanism of Pancreatic alpha-Amylase. Biochemistry (2005)

Release Date

2005-03-15

Peptides

Alpha-amylase, pancreatic: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Alpha-amylase, pancreatic

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