SMTL ID : 1nd4.1

Crystal structure of aminoglycoside-3'-phosphotransferase-IIa

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.10 Å

Oligo State

homo-dimer

Ligands

2 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 2 residues within 4Å: Chain A: N.195, D.208 4 PLIP interactions: 1 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:D.208, H2O.1, H2O.2, H2O.4 MG.5: 2 residues within 4Å: Chain B: N.195, D.208 5 PLIP interactions: 1 interactions with chain B, 4 Ligand-Water interactions Metal complexes: B:D.208, H2O.9, H2O.12, H2O.14, H2O.14

2 x ACT: ACETATE ION(Non-functional Binders)

ACT.2: 6 residues within 4Å: Chain A: F.48, G.95, E.96, V.97, M.197, I.207 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:F.48, A:I.207 Hydrogen bonds: A:V.97 ACT.6: 4 residues within 4Å: Chain B: F.48, E.96, V.97, M.197 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:F.48 Hydrogen bonds: B:V.97

2 x NA: SODIUM ION(Non-functional Binders)

NA.3: 4 residues within 4Å: Chain A: D.190, C.192, N.195 Ligands: KAN.4 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.195 Water bridges: A:D.190, A:N.195 NA.7: 4 residues within 4Å: Chain B: D.190, C.192, N.195 Ligands: KAN.8 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:N.195 Water bridges: B:D.190, B:N.195, B:N.195, B:D.227

2 x KAN: KANAMYCIN A(Non-covalent)

KAN.4: 13 residues within 4Å: Chain A: D.157, L.158, D.159, E.160, D.190, R.211, R.226, D.227, E.230, D.261, E.262, F.264 Ligands: NA.3 20 PLIP interactions: 20 interactions with chain A Hydrogen bonds: A:D.157, A:D.157, A:D.159, A:E.160, A:D.190, A:D.190, A:R.211, A:R.211, A:R.226, A:D.227, A:D.227, A:E.230, A:D.261, A:F.264 Water bridges: A:N.195, A:N.195, A:N.195, A:R.226, A:E.262 Salt bridges: A:R.226 KAN.8: 12 residues within 4Å: Chain B: D.157, L.158, D.159, D.190, R.211, R.226, D.227, E.230, D.261, E.262, F.264 Ligands: NA.7 18 PLIP interactions: 18 interactions with chain B Hydrogen bonds: B:D.157, B:D.157, B:D.159, B:D.190, B:D.190, B:R.211, B:R.211, B:R.226, B:D.227, B:E.230, B:E.230, B:D.261, B:F.264 Water bridges: B:N.195, B:R.226, B:R.226, B:E.262 Salt bridges: B:R.226

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Nurizzo, D. et al., The crystal structure of aminoglycoside-3'-phosphotransferase-IIa, an enzyme responsible for antibiotic resistance. J.Mol.Biol. (2003)

Release Date

2003-09-16

Peptides

Aminoglycoside 3'-phosphotransferase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Aminoglycoside 3'-phosphotransferase