SMTL ID : 5ifu.2 (2 other biounits)

Crystal Structure of Prolyl-tRNA synthetase (ProRS, Proline--tRNA ligase) from Plasmodium falciparum in complex with Glyburide

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.45 Å

Oligo State

monomer

Ligands

1 x GBM: 5-chloro-N-(2-{4-[(cyclohexylcarbamoyl)sulfamoyl]phenyl}ethyl)-2-methoxybenzamide(Non-covalent)

GBM.1: 10 residues within 4Å: Chain A: Y.26, I.36, Y.45, L.47, E.164, T.273, R.274, I.276, G.277 Ligands: FMT.3 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:Y.26, A:I.36, A:L.47, A:I.276 Hydrogen bonds: A:Y.26, A:E.164, A:E.164, A:E.164

4 x FMT: FORMIC ACID(Non-functional Binders)

FMT.2: 4 residues within 4Å: Chain A: S.296, K.297, Y.298, I.355 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.297, A:Y.298 FMT.3: 3 residues within 4Å: Chain A: Y.38, Y.45 Ligands: GBM.1 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Y.38, A:Y.38 FMT.4: 3 residues within 4Å: Chain A: Y.52, E.56, Q.59 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Y.52 Water bridges: A:Q.59 FMT.5: 3 residues within 4Å: Chain A: E.164, T.272, R.274 No protein-ligand interaction detected (PLIP)

1 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.6: 4 residues within 4Å: Chain A: E.56, Q.59, A.60, N.63 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.56, A:N.63

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Hewitt, S.N. et al., Biochemical and Structural Characterization of Selective Allosteric Inhibitors of the Plasmodium falciparum Drug Target, Prolyl-tRNA-synthetase. ACS Infect Dis (2017)

Release Date

2016-11-16

Peptides

Proline--tRNA ligase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

Proline--tRNA ligase

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