SMTL ID : 5ih0.1

Macrolide 2'-phosphotransferase type II Y92M mutant - complex with GDP and erythromycin

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.65 Å

Oligo State

monomer

Ligands

1 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 3 residues within 4Å: Chain A: H.205, D.219 Ligands: GDP.3 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:H.205, A:D.219, H2O.6, H2O.8

1 x ACT: ACETATE ION(Non-functional Binders)

ACT.2: 8 residues within 4Å: Chain A: D.32, F.33, R.49, P.51, V.56, R.59, T.60, I.90 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:F.33, A:T.60, A:I.90 Water bridges: A:R.52 Salt bridges: A:R.59

1 x GDP: GUANOSINE-5'-DIPHOSPHATE(Non-covalent)

GDP.3: 17 residues within 4Å: Chain A: N.27, F.33, A.35, F.37, V.47, R.49, K.94, L.95, G.97, V.98, P.99, G.204, H.205, M.207, I.218, D.219 Ligands: MG.1 12 PLIP interactions: 12 interactions with chain A Hydrogen bonds: A:L.95, A:G.97, A:H.205, A:D.219, A:D.219 Water bridges: A:G.30, A:R.49, A:R.49, A:D.219, A:D.219, A:D.219 Salt bridges: A:R.49

1 x ERY: ERYTHROMYCIN A(Non-covalent)

ERY.4: 23 residues within 4Å: Chain A: I.103, H.105, G.108, N.109, Y.110, G.199, D.200, V.201, H.202, H.205, T.221, E.222, H.230, I.233, F.234, R.237, A.238, Y.273, S.276, I.277, F.280, Y.289, M.292 22 PLIP interactions: 22 interactions with chain A Hydrophobic interactions: A:H.202, A:I.233, A:F.234, A:R.237, A:Y.273, A:I.277, A:F.280, A:F.280 Hydrogen bonds: A:N.109, A:H.202, A:Y.273, A:Y.273 Water bridges: A:G.108, A:D.200, A:E.222, A:R.237, A:R.237, A:S.276, A:S.276 Salt bridges: A:D.200, A:E.222, A:R.237

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Fong, D.H. et al., Structural Basis for Kinase-Mediated Macrolide Antibiotic Resistance. Structure (2017)

Release Date

2017-04-26

Peptides

Macrolide 2'-phosphotransferase II: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Macrolide 2'-phosphotransferase II