SMTL ID : 4wqk.1

Crystal structure of aminoglycoside nucleotidylyltransferase ANT(2")-Ia, apo form

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.48 Å

Oligo State

monomer

Ligands

3 x MG: MAGNESIUM ION(Non-covalent)(Non-functional Binders)

MG.1: 3 residues within 4Å: Chain A: D.45, D.47 Ligands: MG.2 5 PLIP interactions: 2 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:D.45, A:D.47, H2O.8, H2O.8, H2O.9 MG.2: 5 residues within 4Å: Chain A: D.45, D.47, D.87 Ligands: MG.1, GOL.11 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.45, A:D.47, A:D.87, H2O.8 MG.3: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP)

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

CL.4: 3 residues within 4Å: Chain A: F.50, R.55, P.90 Ligand excluded by PLIP

5 x IPA: ISOPROPYL ALCOHOL(Non-functional Binders)

IPA.5: 4 residues within 4Å: Chain A: P.23, W.93, E.110, R.122 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:P.23, A:W.93 IPA.6: 2 residues within 4Å: Chain A: R.119, P.120 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:P.120 IPA.7: 1 residues within 4Å: Chain A: E.96 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:E.96 IPA.8: 3 residues within 4Å: Chain A: D.132, Y.133, Y.136 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:Y.133, A:Y.136 Water bridges: A:Y.133 IPA.9: 3 residues within 4Å: Chain A: P.142, W.145, Y.153 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:Y.153

4 x GOL: GLYCEROL(Non-functional Binders)

GOL.10: 8 residues within 4Å: Chain A: G.27, G.28, E.89, I.100, N.124, I.129, D.132 Ligands: GOL.11 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:G.28, A:E.89 Water bridges: A:D.47, A:I.129 GOL.11: 6 residues within 4Å: Chain A: D.47, D.87, E.89, D.132 Ligands: MG.2, GOL.10 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:D.47, A:D.47, A:E.89 GOL.12: 2 residues within 4Å: Chain A: R.41, K.42 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:K.42 Water bridges: A:R.41, A:R.41, A:E.151 GOL.13: 4 residues within 4Å: Chain A: A.94, D.95, E.96, Q.105 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:D.95, A:E.96, A:Q.105 Water bridges: A:E.96

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Cox, G. et al., Structural and Molecular Basis for Resistance to Aminoglycoside Antibiotics by the Adenylyltransferase ANT(2)-Ia. Mbio (2015)

Release Date

2014-11-12

Peptides

2''-aminoglycoside nucleotidyltransferase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

2''-aminoglycoside nucleotidyltransferase

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