SMTL ID : 5e1q.2 (1 other biounit)

Mutant (D415G) GH97 alpha-galactosidase in complex with Gal-Lac

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.94 Å

Oligo State

monomer

Ligands

1 x BGC- GLA- GAL: alpha-D-galactopyranose-(1-1)-[beta-D-galactopyranose-(1-4)]beta-D-glucopyranose

BGC-GLA-GAL.1: 14 residues within 4Å: Chain A: E.167, H.238, W.303, W.305, D.343, E.344, W.380, K.406, F.409, H.438, E.457, E.463, W.467 Ligands: CA.2 9 PLIP interactions: 9 interactions with chain A Hydrogen bonds: A:E.167, A:E.344, A:E.344, A:K.406, A:K.406, A:H.438, A:E.457 Water bridges: A:S.165, A:E.167, A:E.344, A:Q.464, A:Y.510, A:Y.510, A:K.151, A:S.165, A:Y.510, A:Y.510, A:G.439, A:E.457, A:E.463

1 x CA: CALCIUM ION(Non-covalent)

CA.2: 5 residues within 4Å: Chain A: E.167, E.457, E.463 Ligands: BGC-GLA-GAL.1, BGC-GLA-GAL.1 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:E.167, A:E.457, A:E.457, A:E.463, H2O.7

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 7 residues within 4Å: Chain A: P.470, D.473, K.503, G.504, Y.506, Q.516, W.592 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:P.470, A:D.473, A:Q.474, A:S.502, A:G.504, A:N.505, A:Y.506 GOL.4: 8 residues within 4Å: Chain A: D.22, N.113, D.114, V.268, T.269, T.270, T.271, D.274 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:T.270, A:T.271

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Okuyama, M. et al., Efficient synthesis of alpha-galactosyl oligosaccharides using a mutant Bacteroides thetaiotaomicron retaining alpha-galactosidase (BtGH97b). FEBS J. (2017)

Release Date

2016-10-05

Peptides

Retaining alpha-galactosidase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

Retaining alpha-galactosidase

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