SMTL ID : 6vr3.1

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

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

homo-dimer

Ligands

2 x NTL: N-[(2S,3R)-2-{[(1R,2S,3S,4R,6S)-6-amino-3-{[3-deoxy-4-C-methyl-3-(methylamino)-beta-L-lyxopyranosyl]oxy}-4-(ethylamino) -2-hydroxycyclohexyl]oxy}-6-(aminomethyl)-3,4-dihydro-2H-pyran-3-yl]acetamide(Non-covalent)

NTL.1: 17 residues within 4Å: Chain A: F.30, D.33, F.34, D.38, V.79, E.80, A.81, M.82, S.115, A.116, S.117, Y.124, E.149, E.150, D.177, W.179 Ligands: COA.2 13 PLIP interactions: 13 interactions with chain A Hydrophobic interactions: A:D.177 Hydrogen bonds: A:D.33, A:A.81, A:M.82, A:S.115, A:S.117, A:E.149, A:W.179 Water bridges: A:D.33, A:S.35, A:S.115, A:R.174, A:D.177 NTL.3: 17 residues within 4Å: Chain B: F.30, D.33, F.34, D.38, V.79, E.80, A.81, M.82, S.115, A.116, S.117, Y.124, E.149, E.150, D.177, W.179 Ligands: COA.4 7 PLIP interactions: 7 interactions with chain B Hydrophobic interactions: B:D.177 Hydrogen bonds: B:D.33, B:M.82, B:S.115, B:W.179 Water bridges: B:S.35, B:R.174

2 x COA: COENZYME A(Non-covalent)

COA.2: 20 residues within 4Å: Chain A: G.29, F.30, M.82, V.83, V.84, R.89, R.90, Q.91, G.92, I.93, G.94, R.95, S.115, A.116, S.117, D.119, K.122, L.123, Y.124 Ligands: NTL.1 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:F.30 Hydrogen bonds: A:M.82, A:V.84, A:R.90, A:Q.91, A:G.92, A:I.93, A:G.94, A:R.95 Salt bridges: A:R.90 COA.4: 17 residues within 4Å: Chain B: G.29, F.30, M.82, V.83, V.84, R.89, R.90, Q.91, G.92, I.93, G.94, R.95, A.116, S.117, L.123, Y.124 Ligands: NTL.3 13 PLIP interactions: 13 interactions with chain B Hydrophobic interactions: B:F.30 Hydrogen bonds: B:M.82, B:V.84, B:R.90, B:R.90, B:Q.91, B:G.92, B:I.93, B:G.94, B:R.95, B:S.117 Water bridges: B:Y.88 Salt bridges: B:R.90

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

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