SMTL ID : 8cqg.1

Crystal Structure of a Chimeric Alpha-Amylase from Pseudoalteromonas Haloplanktis

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.74 Å

Oligo State

monomer

Ligands

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

EDO.1: 3 residues within 4Å: Chain A: Q.15, Q.19, R.74 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.74, A:R.74 EDO.2: 2 residues within 4Å: Chain A: T.43, G.44 No protein-ligand interaction detected (PLIP) EDO.3: 7 residues within 4Å: Chain A: A.176, S.177, K.178, H.179, E.201, V.202, I.203 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:A.176, A:K.178, A:K.178, A:I.203, A:I.203 EDO.4: 4 residues within 4Å: Chain A: N.426, S.427, D.428, T.430 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.426, A:S.427 EDO.5: 3 residues within 4Å: Chain A: S.76, A.77, G.79 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.76 Water bridges: A:S.76 EDO.6: 6 residues within 4Å: Chain A: Q.23, H.323, N.324, G.326, N.327, L.328 3 PLIP interactions: 3 interactions with chain A Water bridges: A:H.323, A:G.326, A:G.326 EDO.7: 6 residues within 4Å: Chain A: I.111, Y.112, S.113, Q.115, D.116, Y.152 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:S.113, A:Q.115 Water bridges: A:I.111, A:S.113, A:D.116 EDO.8: 8 residues within 4Å: Chain A: Y.51, L.87, H.90, L.140, V.141, L.143, D.175, A.176 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:H.90, A:D.175 Water bridges: A:A.176, A:E.201, A:D.265 EDO.9: 4 residues within 4Å: Chain A: I.69, D.70, N.73, R.74 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.73 Water bridges: A:R.74 EDO.10: 10 residues within 4Å: Chain A: R.235, N.266, Q.267, R.268, G.269, G.274, S.275, I.277, L.278, T.279 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.235, A:I.277 Water bridges: A:T.279 EDO.11: 7 residues within 4Å: Chain A: Q.59, S.60, R.61, G.63, N.64, Q.67, T.99 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:Q.59, A:G.63 Water bridges: A:S.60, A:N.64, A:N.64, A:Q.67

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

CL.12: 6 residues within 4Å: Chain A: R.173, E.201, T.222, F.224, N.263, R.302 Ligand excluded by PLIP CL.13: 3 residues within 4Å: Chain A: E.57, L.58, R.65 Ligand excluded by PLIP

1 x CA: CALCIUM ION(Non-covalent)

CA.14: 6 residues within 4Å: Chain A: N.89, H.118, Q.136, D.145, H.179, V.180 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:Q.136, A:D.145, A:H.179, H2O.4, H2O.4

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

van der Ent, F. et al., Computational design of the temperature optimum of an enzyme reaction. Sci Adv (2023)

Release Date

2023-06-21

Peptides

Alpha-amylase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Alpha-amylase