SMTL ID : 6tte.1

Beta-galactosidase in complex with PETG

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

homo-tetramer

Ligands

4 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 3 residues within 4Å: Chain A: E.433, H.435, E.478 6 PLIP interactions: 3 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:E.433, A:H.435, A:E.478, H2O.1, H2O.2, H2O.3 MG.3: 3 residues within 4Å: Chain B: E.433, H.435, E.478 6 PLIP interactions: 3 interactions with chain B, 3 Ligand-Water interactions Metal complexes: B:E.433, B:H.435, B:E.478, H2O.13, H2O.14, H2O.15 MG.5: 3 residues within 4Å: Chain C: E.433, H.435, E.478 6 PLIP interactions: 3 interactions with chain C, 3 Ligand-Water interactions Metal complexes: C:E.433, C:H.435, C:E.478, H2O.25, H2O.26, H2O.26 MG.7: 3 residues within 4Å: Chain D: E.433, H.435, E.478 6 PLIP interactions: 3 interactions with chain D, 3 Ligand-Water interactions Metal complexes: D:E.433, D:H.435, D:E.478, H2O.36, H2O.37, H2O.38

4 x PTQ: 2-phenylethyl 1-thio-beta-D-galactopyranoside(Non-covalent)

PTQ.2: 12 residues within 4Å: Chain A: N.119, D.218, E.478, Y.520, E.554, H.557, W.585, D.615, F.618, N.621, V.812, W.1016 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:V.812, A:W.1016 Hydrogen bonds: A:N.119, A:E.478, A:Y.520, A:F.618, A:N.621 Water bridges: A:Y.117, A:H.435, A:E.478 pi-Stacking: A:F.618 PTQ.4: 12 residues within 4Å: Chain B: N.119, D.218, E.478, Y.520, E.554, H.557, W.585, D.615, F.618, N.621, V.812, W.1016 11 PLIP interactions: 11 interactions with chain B Hydrophobic interactions: B:V.812, B:W.1016 Hydrogen bonds: B:N.119, B:E.478, B:Y.520, B:F.618, B:N.621 Water bridges: B:Y.117, B:H.435, B:E.478 pi-Stacking: B:F.618 PTQ.6: 12 residues within 4Å: Chain C: N.119, D.218, E.478, Y.520, E.554, H.557, W.585, D.615, F.618, N.621, V.812, W.1016 10 PLIP interactions: 10 interactions with chain C Hydrophobic interactions: C:V.812, C:W.1016 Hydrogen bonds: C:N.119, C:D.218, C:E.478, C:F.618, C:N.621 Water bridges: C:H.435, C:E.478 pi-Stacking: C:F.618 PTQ.8: 12 residues within 4Å: Chain D: N.119, D.218, E.478, Y.520, E.554, H.557, W.585, D.615, F.618, N.621, V.812, W.1016 10 PLIP interactions: 10 interactions with chain D Hydrophobic interactions: D:V.812, D:W.1016 Hydrogen bonds: D:N.119, D:D.218, D:E.478, D:F.618, D:N.621 Water bridges: D:H.435, D:E.478 pi-Stacking: D:F.618

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Saur, M. et al., Fragment-based drug discovery using cryo-EM. Drug Discov Today (2020)

Release Date

2020-01-15

Peptides

Beta-galactosidase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

Beta-galactosidase

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