SMTL ID : 2v0g.1 (1 other biounit)

LEUCYL-TRNA SYNTHETASE FROM THERMUS THERMOPHILUS COMPLEXED WITH A tRNA(leu) transcript with 5-FLUORO-1,3-DIHYDRO-1-HYDROXY-2,1- BENZOXABOROLE (AN2690) forming an adduct to the ribose of adenosine- 76 in the enzyme editing site.

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 3.50 Å

Oligo State

monomer

Ligands

1 x LEU: LEUCINE(Non-covalent)

LEU.1: 10 residues within 4Å: Chain A: M.40, F.41, P.42, Y.43, D.80, S.504, Y.507, Y.535, H.541, H.545 9 PLIP interactions: 8 interactions with chain A, 1 Ligand-Ligand interactions Hydrophobic interactions: A:M.40, A:Y.507, A:H.545 Hydrogen bonds: A:F.41, A:Y.43, A:D.80, A:D.80, L.1 Salt bridges: A:H.541

2 x ZN: ZINC ION(Non-covalent)

ZN.2: 5 residues within 4Å: Chain A: C.439, C.442, C.484, K.486, C.487 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:C.484, A:C.487 ZN.3: 4 residues within 4Å: Chain A: C.159, C.162, C.176, H.179 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.159, A:C.162, A:C.176, A:H.179

1 x HG: MERCURY (II) ION(Non-covalent)

HG.4: 3 residues within 4Å: Chain A: Y.102, C.128, E.129 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:C.128

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

SO4.5: 1 residues within 4Å: Chain A: R.762 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:R.762 SO4.6: 3 residues within 4Å: Chain A: G.707, R.769, W.795 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:G.707, A:W.795 Salt bridges: A:R.769 SO4.7: 4 residues within 4Å: Chain A: H.49, H.52, S.639, K.640 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:K.640 Salt bridges: A:H.49, A:H.52 SO4.8: 2 residues within 4Å: Chain A: R.759, P.763 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:R.759 SO4.9: 2 residues within 4Å: Chain A: E.188, K.288 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.188 Salt bridges: A:K.288 SO4.10: 4 residues within 4Å: Chain A: R.32, Q.69, G.70, Y.71 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Q.69 Salt bridges: A:R.32 SO4.11: 5 residues within 4Å: Chain A: E.264, L.329, F.330, G.331, R.420 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:F.330, A:G.331 Salt bridges: A:R.420

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Rock, F. et al., An Antifungal Agent Inhibits an Aminoacyl-tRNA Synthetase by Trapping tRNA in the Editing Site. Science (2007)

Release Date

2007-07-03

Peptides

AMINOACYL-TRNA SYNTHETASE: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

AMINOACYL-TRNA SYNTHETASE

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