SMTL ID : 4eg6.1 (2 other biounits)

Trypanosoma brucei methionyl-tRNA synthetase in complex with inhibitor Chem 1325

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.90 Å

Oligo State

monomer

Ligands

8 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 10 residues within 4Å: Chain A: Y.30, I.34, H.314, S.354, G.355, F.356, P.428, D.429, I.430, Q.431 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.354, A:I.430 GOL.2: 6 residues within 4Å: Chain A: W.114, E.118, Y.174, V.232, P.233, G.234 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:W.114, A:E.118, A:Y.174, A:G.234 GOL.3: 6 residues within 4Å: Chain A: R.40, V.44, S.483, P.487, S.490, V.491 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.40, A:P.487 Water bridges: A:R.43 GOL.4: 5 residues within 4Å: Chain A: P.198, E.199, I.427, D.429, K.432 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.199, A:K.432 GOL.5: 2 residues within 4Å: Chain A: R.352, R.370 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.370, A:R.370 GOL.6: 2 residues within 4Å: Chain A: H.164, V.165 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:V.165 GOL.7: 8 residues within 4Å: Chain A: N.21, A.22, H.25, K.61, S.135, H.164, K.319, D.320 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:N.21, A:H.25, A:K.61, A:S.135 GOL.13: 5 residues within 4Å: Chain A: E.406, S.409, A.443, A.446, Y.447 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.406, A:S.409

5 x DMS: DIMETHYL SULFOXIDE(Non-functional Binders)

DMS.8: 3 residues within 4Å: Chain A: K.290 Ligands: DMS.9, DMS.11 No protein-ligand interaction detected (PLIP) DMS.9: 6 residues within 4Å: Chain A: E.161, K.286, D.287, L.289, K.290 Ligands: DMS.8 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:E.161 DMS.10: 6 residues within 4Å: Chain A: F.139, T.141, P.214, K.290, Y.295 Ligands: DMS.11 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Y.295 DMS.11: 5 residues within 4Å: Chain A: A.208, G.212, L.213 Ligands: DMS.8, DMS.10 No protein-ligand interaction detected (PLIP) DMS.12: 4 residues within 4Å: Chain A: K.85, F.88, E.89, I.95 No protein-ligand interaction detected (PLIP)

1 x MET: METHIONINE(Non-covalent)

MET.14: 14 residues within 4Å: Chain A: P.16, I.17, Y.18, Y.19, D.56, W.243, A.246, L.247, N.249, Y.250, I.288, H.292, T.318, K.319 7 PLIP interactions: 6 interactions with chain A, 1 Ligand-Ligand interactions Hydrophobic interactions: A:W.243 Hydrogen bonds: A:I.17, A:Y.19, A:D.56, A:T.318, M.14 Salt bridges: A:K.319

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

Related Entries With Identical Sequence