SMTL ID : 4eg6.2 (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

7 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 5 residues within 4Å: Chain A: R.40, R.43, V.44, S.483, P.487 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.40, A:R.43, A:S.483, A:P.487 GOL.2: 5 residues within 4Å: Chain A: E.112, K.116, L.251, R.255, F.271 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:E.112, A:E.112, A:R.255 GOL.3: 5 residues within 4Å: Chain A: E.406, S.409, A.443, A.446, Y.447 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:E.406, A:S.409, A:S.409 GOL.5: 7 residues within 4Å: Chain A: H.58, T.102, K.107, N.227, W.228, A.229, C.239 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:H.58, A:K.107, A:A.229 GOL.7: 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.8: 3 residues within 4Å: Chain A: V.205, L.289, K.290 No protein-ligand interaction detected (PLIP) GOL.9: 8 residues within 4Å: Chain A: Y.19, G.59, Q.60, K.61, E.137, L.225, Y.241 Ligands: 0P5.6 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Q.60, A:K.61

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

SO4.4: 2 residues within 4Å: Chain A: R.177, A.180 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:R.177

1 x 0P5: 4-{4-[(1H-benzimidazol-2-ylmethyl)amino]-6-(2-chloro-4-methoxyphenoxy)pyrimidin-2-yl}piperazin-2-one(Non-covalent)

0P5.6: 19 residues within 4Å: Chain A: P.16, I.17, Y.19, D.56, H.58, G.59, L.225, V.240, Y.241, V.242, W.243, D.245, A.246, N.249, Y.250, I.288, F.291, H.292 Ligands: GOL.9 13 PLIP interactions: 13 interactions with chain A Hydrophobic interactions: A:P.16, A:H.58, A:L.225, A:Y.241, A:V.242, A:V.242, A:A.246, A:I.288 Hydrogen bonds: A:I.17, A:Y.19, A:D.56 Water bridges: A:D.56, A:Y.241

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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