SMTL ID : 4ydq.1

Crystal Structure of Prolyl-tRNA Synthetase (PRS) from Plasmodium falciparum in complex with Halofuginone and AMPPNP

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

homo-dimer

Ligands

2 x ANP: PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER(Non-covalent)

ANP.1: 16 residues within 4Å: Chain A: R.141, E.143, K.145, F.150, I.151, R.152, T.153, F.156, Q.226, A.227, A.228, T.229, T.263, R.265 Ligands: HFG.2, MG.3 15 PLIP interactions: 15 interactions with chain A Hydrogen bonds: A:R.141, A:E.143, A:K.145, A:K.145, A:R.152, A:R.152, A:T.153, A:Q.226, A:Q.226, A:T.263, A:R.265 Water bridges: A:R.141 Salt bridges: A:R.141 pi-Stacking: A:F.156 pi-Cation interactions: A:R.265 ANP.4: 14 residues within 4Å: Chain B: R.141, F.150, I.151, R.152, T.153, F.156, Q.226, A.227, A.228, T.229, T.263, R.265 Ligands: HFG.5, MG.6 12 PLIP interactions: 12 interactions with chain B Hydrogen bonds: B:R.141, B:R.152, B:R.152, B:T.153, B:T.153, B:Q.226, B:A.227, B:T.229 Water bridges: B:T.153, B:R.265 Salt bridges: B:R.141 pi-Stacking: B:F.156

2 x HFG: 7-bromo-6-chloro-3-{3-[(2R,3S)-3-hydroxypiperidin-2-yl]-2-oxopropyl}quinazolin-4(3H)-one(Non-covalent)

HFG.2: 18 residues within 4Å: Chain A: L.76, F.86, E.89, V.90, P.109, T.110, E.112, R.141, W.158, E.160, H.162, F.205, T.229, H.231, S.259, W.260, G.261 Ligands: ANP.1 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:P.109, A:T.110, A:W.158, A:E.160, A:F.205 Hydrogen bonds: A:T.110, A:R.141 Water bridges: A:R.141, A:H.231 pi-Stacking: A:F.86, A:F.86 HFG.5: 18 residues within 4Å: Chain B: F.86, E.89, V.90, P.109, T.110, E.112, R.141, W.158, E.160, H.162, F.205, T.229, H.231, S.259, W.260, G.261 Ligands: ANP.4, MG.6 10 PLIP interactions: 10 interactions with chain B Hydrophobic interactions: B:P.109, B:T.110, B:W.158, B:E.160, B:F.205 Hydrogen bonds: B:T.110, B:T.110, B:R.141, B:T.229 Water bridges: B:H.231

2 x MG: MAGNESIUM ION(Non-covalent)

MG.3: 2 residues within 4Å: Chain A: K.145 Ligands: ANP.1 No protein-ligand interaction detected (PLIP) MG.6: 4 residues within 4Å: Chain B: E.89, R.141 Ligands: ANP.4, HFG.5 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Jain, V. et al., Structure of Prolyl-tRNA Synthetase-Halofuginone Complex Provides Basis for Development of Drugs against Malaria and Toxoplasmosis. Structure (2015)

Release Date

2015-05-20

Peptides

Proline--tRNA ligase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Proline--tRNA ligase

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