SMTL ID : 5cfs.1

Crystal Structure of ANT(2")-Ia in complex with AMPCPP and tobramycin

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.70 Å

Oligo State

monomer

Ligands

2 x MN: MANGANESE (II) ION(Non-covalent)

MN.1: 4 residues within 4Å: Chain A: D.52, D.54 Ligands: MN.2, APC.4 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.52, A:D.54, H2O.1 MN.2: 6 residues within 4Å: Chain A: D.52, D.54, D.94 Ligands: MN.1, TOY.3, APC.4 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:D.52, A:D.54, A:D.94

1 x TOY: TOBRAMYCIN(Non-covalent)

TOY.3: 11 residues within 4Å: Chain A: D.52, D.54, Y.82, D.94, E.96, I.107, A.108, D.139, Y.142 Ligands: MN.2, APC.4 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:D.52, A:Y.82, A:E.96, A:D.139 Water bridges: A:D.139, A:D.139

1 x APC: DIPHOSPHOMETHYLPHOSPHONIC ACID ADENOSYL ESTER(Non-covalent)

APC.4: 15 residues within 4Å: Chain A: G.35, G.36, R.48, H.50, D.51, D.52, D.54, D.139, Y.140, Y.143, K.155, H.156 Ligands: MN.1, MN.2, TOY.3 13 PLIP interactions: 13 interactions with chain A Hydrogen bonds: A:G.36, A:R.48, A:D.51, A:D.52, A:Y.140 Water bridges: A:W.37, A:W.37, A:I.136 Salt bridges: A:R.48, A:H.50, A:K.155 pi-Stacking: A:Y.143, A:Y.143

1 x PG0: 2-(2-METHOXYETHOXY)ETHANOL(Non-functional Binders)

PG0.5: 8 residues within 4Å: Chain A: V.14, H.18, L.21, D.25, I.123, A.124, R.126, V.128 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:D.25

1 x P6G: HEXAETHYLENE GLYCOL(Non-functional Binders)

P6G.6: 5 residues within 4Å: Chain A: T.15, L.16, K.19, L.72, I.88 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.19

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Bassenden, A.V. et al., Structural Analysis of the Tobramycin and Gentamicin Clinical Resistome Reveals Limitations for Next-generation Aminoglycoside Design. Acs Chem.Biol. (2016)

Release Date

2016-03-16

Peptides

AAD(2''),Gentamicin 2''-nucleotidyltransferase,Gentamicin resistance protein: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

AAD(2''),Gentamicin 2''-nucleotidyltransferase,Gentamicin resistance protein

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