SMTL ID : 4olf.1 (1 other biounit)

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

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.90 Å

Oligo State

monomer

Ligands

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

ANP.1: 16 residues within 4Å: Chain A: R.150, E.152, F.159, I.160, R.161, T.162, F.165, W.167, Q.235, A.236, A.237, T.238, T.272, R.274 Ligands: HFG.2, NA.18 14 PLIP interactions: 14 interactions with chain A Hydrogen bonds: A:R.150, A:E.152, A:R.161, A:R.161, A:T.162, A:Q.235, A:Q.235, A:A.237, A:T.238, A:R.274, A:R.274 Salt bridges: A:R.150 pi-Stacking: A:F.165 pi-Cation interactions: A:R.274

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

HFG.2: 17 residues within 4Å: Chain A: F.95, E.98, V.99, P.118, T.119, E.121, R.150, W.167, E.169, H.171, F.214, T.238, H.240, S.268, W.269, G.270 Ligands: ANP.1 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:P.118, A:F.214 Hydrogen bonds: A:R.150, A:S.268 pi-Stacking: A:F.95, A:F.95

15 x SO4: SULFATE ION(Non-functional Binders)

SO4.3: 3 residues within 4Å: Chain A: N.21, F.22, S.23 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:N.21, A:S.23 Water bridges: A:F.22, A:F.22 SO4.4: 4 residues within 4Å: Chain A: Y.38, S.42, G.43, Y.45 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:G.43, A:Y.45 SO4.5: 1 residues within 4Å: Chain A: E.72 No protein-ligand interaction detected (PLIP) SO4.6: 4 residues within 4Å: Chain A: G.94, F.95, S.96, P.97 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:G.94, A:F.95, A:S.96 SO4.7: 3 residues within 4Å: Chain A: R.338, A.339, S.340 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:A.339, A:S.340 SO4.8: 4 residues within 4Å: Chain A: E.34, H.349, W.350, R.353 2 PLIP interactions: 2 interactions with chain A Salt bridges: A:H.349, A:R.353 SO4.9: 6 residues within 4Å: Chain A: K.18, E.229, T.282, H.283, G.284, K.411 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:E.229 Salt bridges: A:K.18, A:K.411 SO4.10: 3 residues within 4Å: Chain A: S.42, W.151, R.163 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.42, A:S.42 Salt bridges: A:R.163 SO4.11: 3 residues within 4Å: Chain A: Y.53, E.56, C.57 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:E.56 SO4.12: 3 residues within 4Å: Chain A: Y.53, K.297, N.332 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Y.53, A:Y.53, A:N.332 SO4.13: 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, A:Y.52 SO4.14: 6 residues within 4Å: Chain A: N.63, I.66, K.67, V.71, E.72, N.73 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.73, A:N.73 SO4.15: 6 residues within 4Å: Chain A: E.177, N.218, Y.241, G.243, T.244, H.265 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:T.244 Salt bridges: A:H.265 SO4.16: 4 residues within 4Å: Chain A: N.378, E.380, N.403, K.407 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:N.378, A:E.380, A:N.403 Salt bridges: A:K.407 SO4.17: 1 residues within 4Å: Chain A: R.455 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:R.455

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

NA.18: 5 residues within 4Å: Chain A: Q.235, R.274, S.505, Y.506 Ligands: ANP.1 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Q.235, A:R.274, A:Y.506

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

EDO.19: 3 residues within 4Å: Chain A: E.34, E.37, R.48 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:E.34, A:E.37, A:R.48, A:R.48

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Dranow, D.M. et al., Crystal Structure of Prolyl-tRNA synthetase (ProRS, Proline--tRNA ligase)from Plasmodium falciparum in complex with Halofuginone and AMPPNP. To be Published

Release Date

2015-04-15

Peptides

Proline--tRNA ligase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Proline--tRNA ligase

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