SMTL ID : 4eg3.1 (1 other biounit)

Trypanosoma brucei methionyl-tRNA synthetase in complex with product methionyl-adenylate

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.94 Å

Oligo State

monomer

Ligands

7 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 2 residues within 4Å: Chain A: R.352, R.370 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.352, A:R.352, A:R.370, A:R.370 GOL.2: 5 residues within 4Å: Chain A: R.40, V.44, S.483, P.487, V.491 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.40, A:R.40 Water bridges: A:R.43 GOL.3: 4 residues within 4Å: Chain A: K.45, G.419, D.422, F.510 No protein-ligand interaction detected (PLIP) GOL.4: 6 residues within 4Å: Chain A: W.114, E.118, Y.174, V.232, P.233, G.234 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:W.114, A:P.233 GOL.5: 6 residues within 4Å: Chain A: F.139, L.140, T.141, P.214, K.290, Y.295 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:L.140, A:K.290 GOL.6: 2 residues within 4Å: Chain A: P.500, E.501 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:E.501 GOL.7: 2 residues within 4Å: Chain A: Y.124, R.177 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.177, A:R.177

1 x ME8: [[(2R,3S,4R,5R)-5-(6-aminopurin-9-yl)-3,4-dihydroxy-oxolan-2-yl]methoxy-hydroxy-phosphoryl] (2S)-2-azanyl-4-methylsulfanyl-butanoate(Non-covalent)

ME8.8: 24 residues within 4Å: Chain A: P.16, I.17, Y.18, Y.19, H.25, G.27, H.28, Y.30, S.31, D.56, W.243, A.246, L.247, Y.250, I.284, G.285, D.287, I.288, H.292, H.314, G.315, W.316, W.317, K.323 15 PLIP interactions: 15 interactions with chain A Hydrophobic interactions: A:W.243 Hydrogen bonds: A:Y.19, A:S.31, A:S.31, A:D.56, A:D.56, A:G.285, A:D.287, A:W.317, A:W.317, A:K.323 Salt bridges: A:H.28 pi-Stacking: A:W.316, A:W.316, A:W.316

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Koh, C.Y. et al., Distinct States of Methionyl-tRNA Synthetase Indicate Inhibitor Binding by Conformational Selection. Structure (2012)

Release Date

2012-09-12

Peptides

Methionyl-tRNA synthetase, putative: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Methionyl-tRNA synthetase, putative

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