SMTL ID : 5td4.1

Starch binding sites on the Human pancreatic alpha amylase D300N variant complexed with an octaose substrate.

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

monomer

Ligands

2 x GLC- GLC- GLC- GLC: alpha-D-glucopyranose-(1-4)-alpha-D-glucopyranose-(1-4)-alpha-D-glucopyranose-(1-4)-alpha-D-glucopyranose(Non-functional Binders)(Non-covalent)

GLC-GLC-GLC-GLC.1: 4 residues within 4Å: Chain A: N.53, P.54, V.354, W.357 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:V.354 GLC-GLC-GLC-GLC.2: 6 residues within 4Å: Chain A: R.20, N.363, V.366, I.367, K.368, E.369 No protein-ligand interaction detected (PLIP)

2 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(Non-covalent)

GLC-GLC-GLC-GLC-GLC-GLC.3: 27 residues within 4Å: Chain A: W.58, W.59, Y.62, Q.63, H.101, G.104, N.105, A.106, D.147, Y.151, L.162, T.163, G.164, L.165, R.195, D.197, A.198, K.200, H.201, E.233, I.235, E.240, H.299, N.300, H.305, G.306, A.307 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.105, A:A.106, A:D.147 GLC-GLC-GLC-GLC-GLC-GLC.4: 7 residues within 4Å: Chain A: P.130, Y.131, S.132, W.134, D.135, K.172, Y.174 No protein-ligand interaction detected (PLIP)

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

GLC-GLC.5: 6 residues within 4Å: Chain A: K.140, E.171, R.176, W.203, G.205, D.206 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:K.140, A:E.171, A:R.176 Water bridges: A:G.205

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

CL.6: 4 residues within 4Å: Chain A: R.195, T.254, N.298, R.337 Ligand excluded by PLIP

1 x CA: CALCIUM ION(Non-covalent)

CA.7: 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.1

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zhang, X. et al., Evaluation of the Significance of Starch Surface Binding Sites on Human Pancreatic alpha-Amylase. Biochemistry (2016)

Release Date

2016-11-02

Peptides

Pancreatic alpha-amylase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Pancreatic alpha-amylase

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