SMTL ID : 4eg8.2 (1 other biounit)

Trypanosoma brucei methionyl-tRNA synthetase in complex with compound Chem 89

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.60 Å

Oligo State

monomer

Ligands

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

DMS.1: 5 residues within 4Å: Chain A: F.88, E.89, Y.93, S.94, I.95 1 PLIP interactions: 1 interactions with chain A Water bridges: A:E.89

10 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 5 residues within 4Å: Chain A: E.112, L.113, K.116, L.251, R.255 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:E.112, A:R.255 Water bridges: A:E.112, A:K.116 GOL.3: 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.4: 5 residues within 4Å: Chain A: R.40, R.43, V.44, S.483, P.487 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:R.40, A:R.43, A:S.483, A:P.487, A:S.490 Water bridges: A:R.43 GOL.5: 7 residues within 4Å: Chain A: H.58, T.102, K.107, N.227, W.228, A.229, C.239 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.107, A:N.227 GOL.6: 3 residues within 4Å: Chain A: S.325, K.326, S.327 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.326, A:S.327 GOL.7: 1 residues within 4Å: Chain A: R.488 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.488, A:R.488 GOL.8: 1 residues within 4Å: Chain A: W.454 No protein-ligand interaction detected (PLIP) GOL.9: 2 residues within 4Å: Chain A: M.5, E.8 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:E.8 GOL.10: 2 residues within 4Å: Chain A: R.177, A.180 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:D.122, A:R.177, A:R.177 Water bridges: A:R.184 GOL.11: 6 residues within 4Å: Chain A: I.17, D.56, V.242, L.247, F.291 Ligands: 0P6.12 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:I.17, A:D.56

1 x 0P6: 2-aminoquinolin-8-ol(Non-covalent)

0P6.12: 11 residues within 4Å: Chain A: Y.19, D.56, H.58, G.59, E.137, L.225, V.240, Y.241, V.242, D.245 Ligands: GOL.11 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:Y.19, A:H.58, A:L.225, A:Y.241, A:Y.241, A:V.242 Hydrogen bonds: A:D.56, A:D.245 Water bridges: A:H.58

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
B

Methionyl-tRNA synthetase, putative

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