SMTL ID : 9d2s.1

Crystal structure of E. coli Threonine dehydratase regulatory domain F352A mutant in complex with isoleucine

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.22 Å

Oligo State

homo-dimer

Ligands

2 x ILE: ISOLEUCINE(Non-covalent)

ILE.1: 16 residues within 4Å: Chain A: I.31, P.32, E.33, E.34, K.35, G.36, S.37, A.38, L.39, F.53, Y.55, A.63, I.65, N.145, I.146, F.149 18 PLIP interactions: 17 interactions with chain A, 1 Ligand-Ligand interactions Hydrophobic interactions: A:I.31, A:A.38, A:Y.55, A:Y.55, A:Y.55, A:A.63, A:I.65, A:I.146 Hydrogen bonds: A:G.36, A:S.37, A:A.38, A:Y.55, A:N.145, A:N.145, A:I.146, A:I.146, I.1 Water bridges: A:L.39 ILE.3: 16 residues within 4Å: Chain B: I.31, P.32, E.33, E.34, K.35, G.36, S.37, A.38, L.39, F.53, Y.55, A.63, I.65, N.145, I.146, F.149 18 PLIP interactions: 17 interactions with chain B, 1 Ligand-Ligand interactions Hydrophobic interactions: B:I.31, B:A.38, B:Y.55, B:Y.55, B:Y.55, B:A.63, B:I.65, B:I.146 Hydrogen bonds: B:G.36, B:S.37, B:A.38, B:Y.55, B:N.145, B:N.145, B:I.146, B:I.146, I.3 Water bridges: B:L.39

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 10 residues within 4Å: Chain A: Y.55, R.56, A.58, C.64, V.109, G.110 Chain B: G.111, R.112, F.197, L.198 9 PLIP interactions: 2 interactions with chain B, 7 interactions with chain A Hydrogen bonds: B:R.112, B:F.197, A:R.56, A:R.56, A:R.56 Water bridges: A:A.58, A:D.59, A:C.64, A:G.110 GOL.4: 10 residues within 4Å: Chain A: G.111, R.112, F.197, L.198 Chain B: Y.55, R.56, A.58, C.64, V.109, G.110 9 PLIP interactions: 7 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:R.56, B:R.56, B:R.56, A:R.112, A:F.197 Water bridges: B:A.58, B:D.59, B:C.64, B:G.110

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Yun, M.D. et al., Isoleucine binding and regulation of Escherichia coli and Staphylococcus aureus threonine dehydratase (IlvA). Biorxiv (2025)

Release Date

2025-04-09

Peptides

L-threonine dehydratase biosynthetic IlvA: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

L-threonine dehydratase biosynthetic IlvA