SMTL ID : 8ibt.1 (1 other biounit)

Crystal structure of GH42 beta-galactosidase BiBga42A from Bifidobacterium longum subspecies infantis E318S mutant in complex with lacto-N-tetraose

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.20 Å

Oligo State

homo-trimer

Ligands

3 x BGC- GAL- NAG- GAL: beta-D-galactopyranose-(1-3)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-3)-beta-D-galactopyranose-(1-4)-beta-D-glucopyranose

BGC-GAL-NAG-GAL.1: 18 residues within 4Å: Chain A: R.121, E.160, C.163, H.164, M.262, G.266, V.269, D.285, Y.287, N.325, W.326, R.327, F.356, E.366, H.369, W.436 Chain B: W.200, F.221 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:G.266, A:R.327, A:R.327, A:R.121, A:R.121, A:E.160, A:Y.287, A:E.366, A:R.121, A:E.160 Water bridges: A:G.266, A:T.268, A:D.24, A:D.285, A:H.164 Hydrophobic interactions: A:M.262, A:D.285, A:Y.287 BGC-GAL-NAG-GAL.2: 18 residues within 4Å: Chain B: R.121, E.160, C.163, H.164, M.262, G.266, V.269, D.285, Y.287, N.325, W.326, R.327, F.356, E.366, H.369, W.436 Chain C: W.200, F.221 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:G.266, B:R.327, B:R.327, B:R.121, B:R.121, B:E.160, B:Y.287, B:E.366, B:R.121, B:E.160 Water bridges: B:G.266, B:T.268, B:D.24, B:D.285, B:H.164 Hydrophobic interactions: B:M.262, B:D.285, B:Y.287 BGC-GAL-NAG-GAL.3: 18 residues within 4Å: Chain A: W.200, F.221 Chain C: R.121, E.160, C.163, H.164, M.262, G.266, V.269, D.285, Y.287, N.325, W.326, R.327, F.356, E.366, H.369, W.436 6 PLIP interactions: 6 interactions with chain C Hydrogen bonds: C:G.266, C:R.327, C:R.327, C:R.121, C:R.121, C:E.160, C:Y.287, C:E.366, C:R.121, C:E.160 Water bridges: C:G.266, C:T.268, C:D.24, C:D.285, C:H.164 Hydrophobic interactions: C:M.262, C:D.285, C:Y.287

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Gotoh, A. et al., Substrate recognition mode of a glycoside hydrolase family 42 beta-galactosidase from Bifidobacterium longum subspecies infantis ( Bi Bga42A) revealed by crystallographic and mutational analyses. Microbiome Res Rep (2023)

Release Date

2023-06-07

Peptides

Beta-galactosidase: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

Beta-galactosidase

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