SMTL ID : 6toy.1

Crystal structure of Bacillus paralicheniformis wild-type alpha-amylase

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.95 Å

Oligo State

monomer

Ligands

2 x CA: CALCIUM ION(Non-covalent)

CA.1: 5 residues within 4Å: Chain A: N.104, D.194, D.200, H.235 Ligands: NA.3 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.194, A:D.194, A:D.200, A:H.235, H2O.8 CA.2: 5 residues within 4Å: Chain A: D.161, A.181, D.183, D.202, D.204 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.161, A:A.181, A:D.202, A:D.204, H2O.11

2 x NA: SODIUM ION(Non-functional Binders)

NA.3: 7 residues within 4Å: Chain A: D.161, D.183, D.194, D.200, I.201, D.202 Ligands: CA.1 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:D.161, A:D.194 Water bridges: A:I.201 NA.4: 5 residues within 4Å: Chain A: G.300, Y.302, H.406, N.407, D.430 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:G.300

1 x MLI: MALONATE ION(Non-functional Binders)

MLI.5: 5 residues within 4Å: Chain A: L.196, A.232, K.234, H.235, L.335 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:L.196 Water bridges: A:K.234, A:W.263 Salt bridges: A:K.234, A:H.235, A:H.235

1 x FMT: FORMIC ACID(Non-functional Binders)

FMT.6: 3 residues within 4Å: Chain A: D.164, M.197, Y.198 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Y.198

3 x ACY: ACETIC ACID(Non-functional Binders)

ACY.7: 2 residues within 4Å: Chain A: Y.114, R.134 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:Y.114 Salt bridges: A:R.134 ACY.8: 3 residues within 4Å: Chain A: R.437, N.463, W.467 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.463 Salt bridges: A:R.437 ACY.9: 5 residues within 4Å: Chain A: K.213, R.214, T.217, H.247, K.251 2 PLIP interactions: 2 interactions with chain A Salt bridges: A:H.247, A:K.251

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Bozic, N. et al., Characterization of the starch surface binding site on Bacillus paralicheniformis alpha-amylase. Int.J.Biol.Macromol. (2020)

Release Date

2020-10-14

Peptides

Amylase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Amylase

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