SMTL ID : 1mfu.1

Probing the role of a mobile loop in human salivary amylase: Structural studies on the loop-deleted mutant

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

monomer

Ligands

1 x GLC- AGL: 4-amino-4,6-dideoxy-alpha-D-glucopyranose-(1-4)-alpha-D-glucopyranose(Non-covalent)

GLC-AGL.1: 9 residues within 4Å: Chain A: W.58, W.59, Y.62, Q.63, S.163, D.300 Ligands: GLC-GLC-AGL.2, HMC.6, HMC.7 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:W.59, A:Q.63, A:S.163, A:Q.63, A:D.300

3 x GLC- GLC- AGL: 4-amino-4,6-dideoxy-alpha-D-glucopyranose-(1-4)-alpha-D-glucopyranose-(1-4)-alpha-D-glucopyranose

GLC-GLC-AGL.2: 11 residues within 4Å: Chain A: Y.151, A.198, K.200, H.201, E.233, I.235, L.237, E.240, D.300 Ligands: GLC-AGL.1, HMC.7 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Y.151, A:Y.151, A:A.198, A:E.233, A:Y.151, A:K.200, A:E.240 Water bridges: A:E.233, A:E.233 GLC-GLC-AGL.3: 8 residues within 4Å: Chain A: K.261, E.272, Y.276, N.279, G.283, W.284, G.285 Ligands: HMC.8 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:K.261, A:K.261, A:E.272, A:N.279, A:G.283 GLC-GLC-AGL.5: 9 residues within 4Å: Chain A: A.313, K.317, T.371, T.372, R.382, W.383, R.384, Q.385 Ligands: HMC.9 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:T.372 Hydrogen bonds: A:R.384, A:R.384, A:R.384, A:Q.385, A:Q.385, A:K.317, A:K.317, A:Q.385 Water bridges: A:W.383

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

GLC-GLC.4: 6 residues within 4Å: Chain A: K.140, G.171, R.176, W.203, G.205, D.206 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:K.140, A:K.140, A:R.176, A:G.205 Water bridges: A:K.140, A:K.140, A:D.159, A:G.171

4 x HMC: 5-HYDROXYMETHYL-CHONDURITOL(Non-covalent)(Non-functional Binders)

HMC.6: 4 residues within 4Å: Chain A: N.105, D.147, S.163 Ligands: GLC-AGL.1 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:N.105, A:D.147 Water bridges: A:A.106, A:S.163 HMC.7: 12 residues within 4Å: Chain A: W.58, Y.62, H.101, L.162, L.165, R.195, D.197, E.233, H.299, D.300 Ligands: GLC-AGL.1, GLC-GLC-AGL.2 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:H.101, A:R.195, A:R.195, A:D.197, A:E.233, A:D.300 Water bridges: A:N.298 HMC.8: 1 residues within 4Å: Ligands: GLC-GLC-AGL.3 2 PLIP interactions: 2 interactions with chain A Water bridges: A:K.257, A:K.257 HMC.9: 6 residues within 4Å: Chain A: D.370, T.371, R.384, R.387, D.451 Ligands: GLC-GLC-AGL.5 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:R.387, A:R.387, A:D.451 Water bridges: A:D.451, A:D.451

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

GLC.10: 5 residues within 4Å: Chain A: S.132, W.134, D.135, K.172, Y.174 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:K.172, A:K.172 Water bridges: A:Y.174

1 x CA: CALCIUM ION(Non-covalent)

CA.11: 4 residues within 4Å: Chain A: N.100, R.158, D.167, H.201 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:R.158, A:D.167, A:D.167, A:H.201, H2O.3

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

CL.12: 5 residues within 4Å: Chain A: R.195, E.233, T.254, N.298, R.332 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ramasubbu, N. et al., Probing the role of a mobile loop in substrate binding and enzyme activity of human salivary amylase. J.Mol.Biol. (2003)

Release Date

2002-11-20

Peptides

alpha-amylase, Salivary: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

alpha-amylase, Salivary

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