SMTL ID : 8wih.1

Crystal structure of E. coli ThrS catalytic domain mutant G463A in complex with ATP

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.44 Å

Oligo State

homo-dimer

Ligands

2 x ATP: ADENOSINE-5'-TRIPHOSPHATE(Non-covalent)

ATP.1: 15 residues within 4Å: Chain A: R.123, E.125, M.134, R.135, V.136, F.139, Q.141, K.225, Q.239, C.240, T.242, Q.244, G.276, S.277, R.280 18 PLIP interactions: 18 interactions with chain A Hydrogen bonds: A:E.125, A:V.136, A:Q.141, A:Q.239, A:Q.244, A:S.277, A:S.277, A:R.280, A:R.280 Water bridges: A:K.225 Salt bridges: A:R.123, A:R.123, A:K.225, A:K.225 pi-Stacking: A:F.139, A:F.139 pi-Cation interactions: A:R.280, A:R.280 ATP.3: 16 residues within 4Å: Chain B: M.92, R.123, E.125, M.134, R.135, V.136, F.139, Q.141, K.225, Q.239, C.240, T.242, Q.244, G.276, S.277, R.280 14 PLIP interactions: 14 interactions with chain B Hydrogen bonds: B:E.125, B:V.136, B:Q.239, B:Q.244, B:S.277, B:S.277, B:R.280, B:R.280 Water bridges: B:K.225 Salt bridges: B:R.123, B:K.225 pi-Stacking: B:F.139, B:F.139 pi-Cation interactions: B:R.280

2 x ZN: ZINC ION(Non-covalent)

ZN.2: 3 residues within 4Å: Chain A: C.94, H.145, H.271 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:C.94, A:H.145, A:H.271, H2O.1 ZN.4: 4 residues within 4Å: Chain B: C.94, H.145, Y.222, H.271 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
A

B
B

Threonine--tRNA ligase

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