SMTL ID : 6cgg.1 (3 other biounits)

Aminoglycoside Phosphotransferase (2'')-Ia in complex with GMPPNP, Magnesium, and Arbekacin

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.40 Å

Oligo State

monomer

Ligands

1 x GNP: PHOSPHOAMINOPHOSPHONIC ACID-GUANYLATE ESTER(Non-covalent)

GNP.1: 17 residues within 4Å: Chain A: I.34, S.36, G.37, S.40, A.42, I.50, K.52, Y.63, Y.100, E.102, I.103, F.107, H.205, I.218, D.219 Ligands: MG.2, MG.3 17 PLIP interactions: 17 interactions with chain A Hydrogen bonds: A:S.40, A:K.52, A:K.52, A:I.103, A:I.103, A:I.103 Water bridges: A:G.37, A:G.37, A:Y.63, A:Y.70, A:Y.100, A:G.105, A:N.204, A:D.222, A:D.222 Salt bridges: A:K.52, A:E.102

2 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 4 residues within 4Å: Chain A: H.205, D.219 Ligands: GNP.1, MG.3 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:H.205, A:D.219, H2O.8, H2O.8 MG.3: 3 residues within 4Å: Chain A: D.219 Ligands: GNP.1, MG.2 5 PLIP interactions: 2 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:D.219, A:D.219, H2O.8, H2O.8, H2O.8

1 x CL: CHLORIDE ION(Non-functional Binders)

CL.4: 4 residues within 4Å: Chain A: Q.288, I.291, E.292, R.295 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Caldwell, S.J. et al., Plasticity of Aminoglycoside Binding to Antibiotic Kinase APH(2′′)-Ia. Antimicrob. Agents Chemother. (2018)

Release Date

2018-04-11

Peptides

Bifunctional AAC/APH: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Bifunctional AAC/APH

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