SMTL ID : 6ftb.1

Staphylococcus aureus monofunctional glycosyltransferase in complex with moenomycin

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.10 Å

Oligo State

monomer

Ligands

3 x M0E: MOENOMYCIN(Non-covalent)

M0E.1: 27 residues within 4Å: Chain A: Q.42, G.73, S.74, Q.79, K.82, N.83, D.87, R.90, S.91, F.92, K.95, Y.123, G.125, D.126, V.165, N.166, A.167, P.168, S.169, V.170 Ligands: M0E.3, EDO.4, EDO.5, EDO.6, EDO.7, EDO.8, 1QW.14 28 PLIP interactions: 28 interactions with chain A Hydrophobic interactions: A:F.92, A:F.92, A:Y.123, A:V.170 Hydrogen bonds: A:Q.42, A:G.73, A:Q.79, A:K.82, A:N.83, A:D.87, A:R.90, A:Y.123, A:D.126, A:V.165, A:V.165, A:N.166, A:S.169, A:S.169, A:S.169, A:V.170 Water bridges: A:S.74, A:N.127 Salt bridges: A:K.82, A:K.82, A:K.82, A:R.90, A:R.90, A:K.95 M0E.2: 6 residues within 4Å: Chain A: H.49, H.50, G.51, F.52, D.53, L.54 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:H.50, A:F.52, A:D.53, A:L.54 M0E.3: 7 residues within 4Å: Chain A: F.52, T.57, G.72, G.73, Q.78 Ligands: M0E.1, PO4.13 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:T.57, A:T.57, A:Q.78 Water bridges: A:Q.71, A:G.72

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

EDO.4: 11 residues within 4Å: Chain A: N.2, Q.6, N.83, N.121, I.122, Y.123, Y.129 Ligands: M0E.1, EDO.5, EDO.6, EDO.8 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:Q.6, A:N.83, A:N.121, A:Y.123 EDO.5: 8 residues within 4Å: Chain A: N.83, I.122, Y.123, V.165, P.168 Ligands: M0E.1, EDO.4, EDO.8 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.83, A:Y.123, A:Y.123 EDO.6: 6 residues within 4Å: Chain A: Q.6, D.87, Y.129 Ligands: M0E.1, EDO.4, EDO.8 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Q.6 EDO.7: 7 residues within 4Å: Chain A: Q.42, G.72, G.73, S.74, Q.79, N.166 Ligands: M0E.1 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:Q.42, A:S.74, A:Q.79, A:N.166 Water bridges: A:G.73 EDO.8: 12 residues within 4Å: Chain A: Q.6, K.82, N.83, F.85, Y.86, D.87 Ligands: M0E.1, EDO.4, EDO.5, EDO.6, EDO.9, EDO.10 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:Q.6, A:N.83, A:D.87, A:D.87 EDO.9: 8 residues within 4Å: Chain A: K.82, F.85, Y.86, R.90, R.94, E.98 Ligands: EDO.8, EDO.10 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:K.82, A:N.88, A:R.90, A:R.94, A:R.94 EDO.10: 6 residues within 4Å: Chain A: K.82, D.87, N.88, R.90 Ligands: EDO.8, EDO.9 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.88, A:R.90 EDO.11: 2 residues within 4Å: Chain A: N.110, K.111 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:K.111 Water bridges: A:E.106, A:E.106, A:N.112

2 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.12: 5 residues within 4Å: Chain A: S.147, T.148, M.150, S.151, H.152 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:M.150 Water bridges: A:H.152, A:H.152 PO4.13: 4 residues within 4Å: Chain A: T.57, T.58, L.61 Ligands: M0E.3 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:T.58

1 x 1QW: (2R)-2,3-dihydroxypropyl dodecanoate(Non-covalent)

1QW.14: 10 residues within 4Å: Chain A: D.126, Y.138, K.164, P.168, S.169, V.170, Y.171, N.172, I.173 Ligands: M0E.1 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:D.126, A:D.126, A:Y.138, A:K.164, A:I.173 Salt bridges: A:K.164

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Punekar, A.S. et al., The role of the jaw subdomain of peptidoglycan glycosyltransferases for lipid II polymerization. Cell Surf (2018)

Release Date

2018-06-27

Peptides

Monofunctional glycosyltransferase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Monofunctional glycosyltransferase