SMTL ID : 7fal.1

Co-crystal Structure of Toxoplasma gondii Prolyl tRNA Synthetase (TgPRS) in complex with T36 and L-pro

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.22 Å

Oligo State

homo-dimer

Ligands

2 x 1T0: 4-[(3R)-3-cyano-3-(1-methylcyclopropyl)-2-oxidanylidene-pyrrolidin-1-yl]-N-[[3-fluoranyl-5-(1-methylpyrazol-4-yl)phenyl]methyl]-6-methyl-pyridine-2-carboxamide(Non-covalent)

1T0.1: 18 residues within 4Å: Chain A: R.140, E.142, K.144, Q.145, P.146, F.149, L.150, R.151, T.152, R.153, F.155, Q.225, A.226, A.227, T.228, C.261, T.262, R.264 15 PLIP interactions: 15 interactions with chain A Hydrophobic interactions: A:E.142, A:K.144, A:R.151, A:R.153, A:F.155, A:Q.225, A:T.228, A:T.262 Hydrogen bonds: A:T.152, A:T.152, A:T.262, A:T.262 pi-Stacking: A:F.155 pi-Cation interactions: A:R.151, A:R.264 1T0.3: 18 residues within 4Å: Chain B: R.140, E.142, K.144, Q.145, P.146, F.149, L.150, R.151, T.152, R.153, F.155, Q.225, T.228, G.260, C.261, T.262, R.264 Ligands: PRO.4 14 PLIP interactions: 14 interactions with chain B Hydrophobic interactions: B:K.144, B:R.151, B:R.151, B:R.153, B:F.155, B:Q.225, B:T.228, B:T.262 Hydrogen bonds: B:T.152, B:T.152, B:T.262 pi-Stacking: B:F.155 pi-Cation interactions: B:R.151, B:R.264

2 x PRO: PROLINE(Non-covalent)

PRO.2: 12 residues within 4Å: Chain A: T.109, E.111, R.140, W.157, E.159, H.161, F.204, T.228, H.230, S.258, W.259, G.260 7 PLIP interactions: 6 interactions with chain A, 1 Ligand-Ligand interactions Hydrophobic interactions: A:W.157, A:T.228 Hydrogen bonds: A:T.109, A:S.258, P.2 Salt bridges: A:R.140, A:H.230 PRO.4: 10 residues within 4Å: Chain B: T.109, E.111, R.140, W.157, F.204, T.228, H.230, S.258, W.259 Ligands: 1T0.3 10 PLIP interactions: 8 interactions with chain B, 2 Ligand-Ligand interactions Hydrophobic interactions: B:W.157, B:T.228 Hydrogen bonds: B:T.109, B:T.109, B:T.109, B:S.258, P.4, P.4 Salt bridges: B:R.140, B:H.230

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Yogavel, M. et al., Targeting prolyl-tRNA synthetase via a series of ATP-mimetics to accelerate drug discovery against toxoplasmosis. Plos Pathog. (2023)

Release Date

2022-08-31

Peptides

Prolyl-tRNA synthetase (ProRS): AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Prolyl-tRNA synthetase (ProRS)

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