SMTL ID : 8wij.1

Crystal structure of E. coli ThrS catalytic domain mutant L489M in complex with Obafluorin

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.08 Å

Oligo State

homo-dimer

Ligands

2 x X5V: N-(2,3-dihydroxybenzoyl)-4-(4-nitrophenyl)-L-threonine(Covalent)

X5V.1: 12 residues within 4Å: Chain A: M.92, C.94, R.123, D.143, H.145, Y.222, T.242, Q.244, H.271, R.272, A.273 Ligands: ZN.2 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:T.242, A:H.271, A:A.273 pi-Stacking: A:Y.73 X5V.3: 15 residues within 4Å: Chain B: Y.73, A.76, P.91, M.92, C.94, R.123, D.143, H.145, Y.222, T.242, Q.244, H.271, R.272, A.273 Ligands: ZN.4 3 PLIP interactions: 3 interactions with chain B Hydrophobic interactions: B:T.242, B:A.273 pi-Stacking: B:Y.73

2 x ZN: ZINC ION(Non-covalent)

ZN.2: 4 residues within 4Å: Chain A: C.94, H.145, H.271 Ligands: X5V.1 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:C.94, A:H.145, A:H.271 ZN.4: 4 residues within 4Å: Chain B: C.94, H.145, H.271 Ligands: X5V.3 3 PLIP interactions: 3 interactions with chain B Metal complexes: B:C.94, B:H.145, B:H.271

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Qiao, H. et al., Specific glycine-dependent enzyme motion determines the potency of conformation selective inhibitors of threonyl-tRNA synthetase. Commun Biol (2024)

Release Date

2024-07-24

Peptides

Threonine--tRNA ligase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
A

Threonine--tRNA ligase