SMTL ID : 6ik5.2 (1 other biounit)

Crystal structure of tomato beta-galactosidase (TBG) 4 in complex with galactose

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.82 Å

Oligo State

monomer

Ligands

1 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG-NAG.1: 5 residues within 4Å: Chain A: D.12, N.264, N.265, Y.331, A.332 No protein-ligand interaction detected (PLIP)

1 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG.2: 3 residues within 4Å: Chain A: W.438, E.439, N.442 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:W.438, A:E.439, A:N.442

1 x GAL: beta-D-galactopyranose(Non-covalent)

GAL.3: 14 residues within 4Å: Chain A: Y.57, V.100, C.101, A.102, E.103, N.163, E.164, N.213, E.233, W.235, W.238, Y.239, Y.272, Y.295 11 PLIP interactions: 11 interactions with chain A Hydrogen bonds: A:Y.57, A:Y.57, A:A.102, A:E.103, A:N.163, A:E.164, A:E.164, A:N.213, A:Y.293, A:Y.295 Water bridges: A:N.530

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Matsuyama, K. et al., Substrate-recognition mechanism of tomato beta-galactosidase 4 using X-ray crystallography and docking simulation. Planta (2020)

Release Date

2018-11-28

Peptides

Beta-galactosidase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

Beta-galactosidase

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