SMTL ID : 7q1x.1

Acetyltrasferase(3) type IIIa in complex with neomycin B

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.45 Å

Oligo State

homo-dimer

Ligands

5 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 5 residues within 4Å: Chain A: D.109, T.112 Chain B: N.61, Q.65, W.129 3 PLIP interactions: 1 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:T.112, B:N.61, B:Q.65 GOL.4: 3 residues within 4Å: Chain A: R.147, Q.148, L.151 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.147 GOL.6: 5 residues within 4Å: Chain A: H.133, R.134, A.150, T.153, A.154 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.134, A:A.150 Water bridges: A:V.132 GOL.8: 6 residues within 4Å: Chain B: K.98, L.102, P.209, W.220, V.221, T.222 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:K.98, B:K.98, B:V.221 GOL.11: 3 residues within 4Å: Chain B: Y.160, Y.196, Y.226 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:Y.196 Water bridges: B:Y.160, B:E.224

5 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.2: 2 residues within 4Å: Chain A: R.207, E.224 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.207 Water bridges: A:Y.160 PEG.3: 8 residues within 4Å: Chain A: D.88, E.139, V.206, Y.208, D.225, Y.226, D.227, T.228 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:D.88, A:D.225, A:T.228 Water bridges: A:E.139, A:T.228 PEG.5: 5 residues within 4Å: Chain A: V.164, E.165, S.166, A.169, K.170 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:E.165, A:S.166, A:S.166 Water bridges: A:K.170 PEG.9: 5 residues within 4Å: Chain A: P.60, V.121, F.125 Chain B: R.114, E.124 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:R.114, B:E.124 Water bridges: B:Q.84, B:R.127 PEG.10: 5 residues within 4Å: Chain B: H.133, R.134, A.150, T.153, A.154 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:H.133, B:R.134 Water bridges: B:A.136, B:A.150, B:N.155, B:N.155

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

CL.7: 5 residues within 4Å: Chain A: A.48, S.49, V.50, N.119, V.121 Ligand excluded by PLIP CL.13: 6 residues within 4Å: Chain B: A.48, S.49, V.50, N.119, S.120, V.121 Ligand excluded by PLIP

1 x NMY: NEOMYCIN(Non-covalent)

NMY.12: 10 residues within 4Å: Chain B: Y.80, E.139, Y.162, D.186, T.187, H.192, T.228, G.229, D.230, F.237 12 PLIP interactions: 12 interactions with chain B Hydrogen bonds: B:E.139, B:E.139, B:Y.162, B:T.228, B:D.230, B:D.230 Water bridges: B:Y.80, B:E.139, B:D.186, B:D.186, B:T.228 Salt bridges: B:H.192

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Pontillo, N. et al., The 3-N-alkylation of the neomycin B outmaneuvers the aminoglycoside resistant enzyme acetyltransferase(3)IIIa via an unexpected mechanism. To Be Published

Release Date

2022-11-02

Peptides

Aminoglycoside N(3)-acetyltransferase III: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
A

Aminoglycoside N(3)-acetyltransferase III

Related Entries With Identical Sequence