SMTL ID : 4ncx.1

Crystal Structure of Prolyl-tRNA synthetase (ProRS, Proline--tRNA ligase) from Plasmodium falciparum 3D7

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.85 Å

Oligo State

homo-dimer

Ligands

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

EDO.1: 6 residues within 4Å: Chain A: A.50, L.291, S.296, K.297, Y.298, I.355 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:K.297, A:Y.298, A:Y.298 Water bridges: A:P.49, A:A.50 EDO.2: 5 residues within 4Å: Chain A: L.69, N.70, K.141, K.182, D.186 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:L.69, A:N.70, A:K.182 Water bridges: A:K.182 EDO.3: 6 residues within 4Å: Chain A: Q.235, A.236, A.237, T.238, G.270, R.274 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:Q.235, A:T.238, A:T.238, A:R.274 Water bridges: A:T.272 EDO.4: 6 residues within 4Å: Chain A: E.72 Chain B: P.49, A.50, Y.53, K.297 Ligands: EDO.7 3 PLIP interactions: 2 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:P.49 Water bridges: B:A.50, A:E.72 EDO.7: 7 residues within 4Å: Chain B: A.50, L.291, S.296, K.297, Y.298, I.355 Ligands: EDO.4 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:K.297, B:Y.298, B:Y.298 EDO.8: 5 residues within 4Å: Chain B: D.285, K.287, D.377, N.378, N.379 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:D.285 Water bridges: B:K.287, B:R.376

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

CL.5: 3 residues within 4Å: Chain A: V.80, T.81 Chain B: F.153 Ligand excluded by PLIP CL.6: 3 residues within 4Å: Chain A: P.293, N.294, K.299 Ligand excluded by PLIP CL.9: 3 residues within 4Å: Chain B: E.212, F.214, H.240 Ligand excluded by PLIP

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

2014-10-29

Peptides

Proline--tRNA ligase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Proline--tRNA ligase

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