SMTL ID : 7uuk.1

Crystal structure of aminoglycoside resistance enzyme ApmA, complex with tobramycin

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.82 Å

Oligo State

homo-trimer

Ligands

3 x TOY: TOBRAMYCIN(Non-covalent)

TOY.1: 14 residues within 4Å: Chain A: D.83, G.85, G.86, E.87, Y.104, F.105, G.106, G.129 Chain C: N.115, Y.117, H.137, D.146, D.147, Y.172 8 PLIP interactions: 4 interactions with chain C, 4 interactions with chain A Hydrogen bonds: C:N.115, C:Y.117, C:D.147, A:D.83, A:D.83, A:E.87, A:Y.104 Water bridges: C:N.115 TOY.3: 12 residues within 4Å: Chain A: N.115, H.137, D.146, D.147, Y.172 Chain B: D.83, G.86, E.87, Y.104, F.105, G.106, G.129 9 PLIP interactions: 6 interactions with chain B, 3 interactions with chain A Hydrogen bonds: B:D.83, B:E.87, B:Y.104, B:F.105, A:N.115, A:N.115, A:D.147 Water bridges: B:D.83, B:Y.186 TOY.5: 13 residues within 4Å: Chain B: N.115, H.137, D.146, D.147, Y.172 Chain C: D.83, G.85, G.86, E.87, Y.104, F.105, G.106, G.129 10 PLIP interactions: 7 interactions with chain C, 3 interactions with chain B Hydrogen bonds: C:D.83, C:G.85, C:E.87, C:Y.104, C:Y.104, C:F.105, B:N.115, B:D.147 Water bridges: C:G.129, B:N.115

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

CL.2: 3 residues within 4Å: Chain A: Q.149, Q.161, Y.174 Ligand excluded by PLIP CL.4: 3 residues within 4Å: Chain B: Q.149, Q.161, Y.174 Ligand excluded by PLIP CL.6: 3 residues within 4Å: Chain C: Q.149, Q.161, Y.174 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Bordeleau, E. et al., Mechanistic plasticity in ApmA enables aminoglycoside promiscuity for resistance. Nat.Chem.Biol. (2024)

Release Date

2023-04-19

Peptides

Aminocyclitol acetyltransferase ApmA: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

Aminocyclitol acetyltransferase ApmA

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