SMTL ID : 7msk.1

ThuS glycosin S-glycosyltransferase

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.06 Å

Oligo State

homo-dimer

Ligands

2 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 3 residues within 4Å: Chain A: D.150, H.230 Ligands: U2F.2 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:D.150, A:D.150, A:H.230 MG.3: 3 residues within 4Å: Chain B: D.150, H.230 Ligands: U2F.4 4 PLIP interactions: 3 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:D.150, B:D.150, B:H.230, H2O.9

2 x U2F: URIDINE-5'-DIPHOSPHATE-2-DEOXY-2-FLUORO-ALPHA-D-GLUCOSE(Non-covalent)

U2F.2: 20 residues within 4Å: Chain A: L.73, T.74, Y.75, E.77, S.100, W.124, F.128, R.132, D.148, A.149, D.150, K.193, V.207, H.208, E.209, H.230, Y.233, K.243, R.246 Ligands: MG.1 24 PLIP interactions: 24 interactions with chain A Hydrogen bonds: A:Y.75, A:Y.75, A:E.77, A:S.100, A:S.100, A:R.132, A:R.132, A:D.148, A:D.148, A:D.148, A:A.149, A:K.193, A:H.208, A:E.209, A:Y.233 Water bridges: A:T.74, A:R.132, A:K.243 Salt bridges: A:H.230, A:K.243, A:K.243, A:R.246, A:R.246, A:R.246 U2F.4: 20 residues within 4Å: Chain B: L.73, T.74, Y.75, E.77, S.100, W.124, F.128, R.132, D.148, A.149, D.150, K.193, V.207, H.208, E.209, H.230, Y.233, K.243, R.246 Ligands: MG.3 23 PLIP interactions: 23 interactions with chain B Hydrophobic interactions: B:F.128 Hydrogen bonds: B:Y.75, B:Y.75, B:E.77, B:S.100, B:S.100, B:R.132, B:R.132, B:D.148, B:D.148, B:A.149, B:K.193, B:H.208, B:R.246 Water bridges: B:T.74, B:R.132, B:D.148, B:D.148, B:N.247 Salt bridges: B:H.230, B:K.243, B:K.243, B:R.246

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Fujinami, D. et al., Structural and mechanistic investigations of protein S-glycosyltransferases. Cell Chem Biol (2021)

Release Date

2022-04-13

Peptides

Glyco_trans_2-like domain-containing protein: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Glyco_trans_2-like domain-containing protein