SMTL ID : 8uf5.2 (1 other biounit)

Catalytic domain of GtfB in complex with inhibitor G43

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.50 Å

Oligo State

monomer

Ligands

1 x CA: CALCIUM ION(Non-covalent)

CA.1: 4 residues within 4Å: Chain A: E.215, D.221, N.265, D.743 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:E.215, A:E.215, A:D.221, A:N.265, A:D.743

1 x WIJ: N-(2-carbamoylphenyl)-5-nitro-1-benzothiophene-2-carboxamide(Non-covalent)

WIJ.2: 8 residues within 4Å: Chain A: Y.214, D.264, N.265, N.321, R.324, L.325 Ligands: BTB.3, DMS.6 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:D.264 Hydrogen bonds: A:Y.214, A:Y.214

1 x BTB: 2-[BIS-(2-HYDROXY-ETHYL)-AMINO]-2-HYDROXYMETHYL-PROPANE-1,3-DIOL(Non-covalent)

BTB.3: 12 residues within 4Å: Chain A: R.259, D.261, E.299, H.371, D.372, Q.376, N.646, D.693, N.698, Y.700, Q.744 Ligands: WIJ.2 12 PLIP interactions: 12 interactions with chain A Hydrogen bonds: A:R.259, A:R.259, A:D.261, A:D.372, A:Q.376, A:N.646, A:Q.744 Water bridges: A:E.299 Salt bridges: A:D.261, A:D.372, A:D.693 pi-Cation interactions: A:Y.700

2 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.4: 10 residues within 4Å: Chain A: V.495, R.496, Y.497, S.515, G.516, V.517, M.539, H.543, Y.548, P.605 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.496, A:Y.548, A:Y.548 EDO.5: 9 residues within 4Å: Chain A: F.255, M.679, A.680, P.681, Q.682, Y.683, M.737, A.738, D.739 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:M.679, A:Q.682, A:D.739

1 x DMS: DIMETHYL SULFOXIDE(Non-functional Binders)

DMS.6: 8 residues within 4Å: Chain A: D.208, T.210, G.212, G.213, D.264, W.301, S.302 Ligands: WIJ.2 2 PLIP interactions: 2 interactions with chain A Salt bridges: A:D.208, A:D.264

4 x SO4: SULFATE ION(Non-functional Binders)

SO4.7: 4 residues within 4Å: Chain A: V.822, K.823, K.830, Y.831 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Y.831 Salt bridges: A:K.830 SO4.8: 3 residues within 4Å: Chain A: A.414, T.415, E.416 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:T.415, A:T.415, A:E.416 SO4.9: 3 residues within 4Å: Chain A: K.653, K.654, E.655 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.654 SO4.10: 3 residues within 4Å: Chain A: T.718, D.720, D.721 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:T.718, A:D.720 Salt bridges: A:K.724

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zhang, Q. et al., Structure-Based Discovery of Small Molecule Inhibitors of Cariogenic Virulence. Sci Rep (2017)

Release Date

2023-10-18

Peptides

Glucosyltransferase-I: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

Glucosyltransferase-I

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