SMTL ID : 6vta.1

Aminoglycoside N-2'-Acetyltransferase-Ia [AAC(2')-Ia] in complex with amikacin and acetyl-CoA

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.42 Å

Oligo State

homo-dimer

Ligands

2 x ACO: ACETYL COENZYME *A(Non-covalent)

ACO.1: 25 residues within 4Å: Chain A: G.31, F.32, V.81, A.83, M.84, V.85, V.86, R.91, R.92, Q.93, G.94, I.95, G.96, R.97, L.116, S.117, A.118, S.119, D.121, G.122, K.124, L.125, Y.126, S.128 Ligands: AKN.2 26 PLIP interactions: 26 interactions with chain A Hydrophobic interactions: A:F.32, A:L.116 Hydrogen bonds: A:A.83, A:M.84, A:M.84, A:V.86, A:R.92, A:R.92, A:Q.93, A:G.94, A:G.94, A:I.95, A:G.96, A:R.97, A:S.119, A:D.121, A:Y.126, A:S.128 Water bridges: A:Y.90, A:R.91, A:R.92, A:R.92, A:K.124 Salt bridges: A:R.92 pi-Cation interactions: A:R.92, A:R.92 ACO.3: 23 residues within 4Å: Chain B: G.31, F.32, V.81, A.83, M.84, V.85, V.86, R.91, R.92, Q.93, G.94, I.95, G.96, R.97, L.116, S.117, A.118, S.119, D.121, G.122, L.125, Y.126 Ligands: AKN.4 28 PLIP interactions: 28 interactions with chain B Hydrophobic interactions: B:F.32, B:V.86, B:L.116, B:D.121 Hydrogen bonds: B:A.83, B:M.84, B:M.84, B:V.86, B:R.92, B:R.92, B:G.94, B:I.95, B:G.96, B:R.97, B:S.119, B:D.121, B:D.121, B:D.121, B:Y.126 Water bridges: B:Y.90, B:R.91, B:R.92, B:R.92, B:Q.93, B:L.125 Salt bridges: B:R.92 pi-Cation interactions: B:R.92, B:R.92

2 x AKN: (2S)-N-[(1R,2S,3S,4R,5S)-4-[(2R,3R,4S,5S,6R)-6-(aminomethyl)-3,4,5-tris(oxidanyl)oxan-2-yl]oxy-5-azanyl-2-[(2S,3R,4S,5S ,6R)-4-azanyl-6-(hydroxymethyl)-3,5-bis(oxidanyl)oxan-2-yl]oxy-3-oxidanyl-cyclohexyl]-4-azanyl-2-oxidanyl-butanamide(Non-covalent)

AKN.2: 14 residues within 4Å: Chain A: F.32, D.35, F.36, D.40, E.82, A.83, S.117, A.118, S.119, D.120, E.151, E.152, W.181 Ligands: ACO.1 18 PLIP interactions: 18 interactions with chain A Hydrogen bonds: A:D.35, A:E.82, A:E.82, A:A.83, A:S.117, A:D.120, A:D.120, A:D.120, A:E.152, A:E.152, A:W.181 Water bridges: A:D.35, A:D.35, A:V.81, A:E.151, A:E.151, A:D.179, A:W.181 AKN.4: 14 residues within 4Å: Chain B: F.32, D.35, F.36, D.40, E.82, A.83, S.117, A.118, S.119, D.120, E.151, E.152, W.181 Ligands: ACO.3 18 PLIP interactions: 18 interactions with chain B Hydrogen bonds: B:D.35, B:E.82, B:A.83, B:S.117, B:D.120, B:D.120, B:D.120, B:E.152, B:W.181 Water bridges: B:D.35, B:D.40, B:D.40, B:V.81, B:D.120, B:D.121, B:E.151, B:D.179, B:W.181

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Bassenden, A.V. et al., Structural and phylogenetic analyses of resistance to next-generation aminoglycosides conferred by AAC(2') enzymes. Sci Rep (2021)

Release Date

2021-06-02

Peptides

Aminoglycoside 2'-N-acetyltransferase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Aminoglycoside 2'-N-acetyltransferase