SMTL ID : 8sbg.1

Crystal structure of B. theta tryptophanase in holo form

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.94 Å

Oligo State

homo-tetramer

Ligands

4 x PLP: PYRIDOXAL-5'-PHOSPHATE(Covalent)

PLP.1: 16 residues within 4Å: Chain A: S.73, Q.120, G.121, R.122, E.125, F.145, T.147, T.148, T.202, N.206, D.235, A.237, R.238, S.275, K.277, K.278 21 PLIP interactions: 21 interactions with chain A Hydrophobic interactions: A:F.145, A:F.145, A:T.202, A:N.206, A:K.278 Hydrogen bonds: A:S.73, A:G.121, A:R.122, A:N.206, A:R.238, A:R.238, A:S.275, A:S.275 Water bridges: A:R.122, A:R.122, A:A.237, A:K.277 Salt bridges: A:R.122, A:K.277, A:K.278 pi-Stacking: A:F.145 PLP.2: 16 residues within 4Å: Chain B: S.73, Q.120, G.121, R.122, E.125, F.145, T.147, T.148, T.202, N.206, D.235, A.237, R.238, S.275, K.277, K.278 21 PLIP interactions: 21 interactions with chain B Hydrophobic interactions: B:F.145, B:F.145, B:T.202, B:N.206, B:K.278 Hydrogen bonds: B:S.73, B:G.121, B:R.122, B:N.206, B:R.238, B:R.238, B:S.275, B:S.275 Water bridges: B:R.122, B:R.122, B:A.237, B:K.277 Salt bridges: B:R.122, B:K.277, B:K.278 pi-Stacking: B:F.145 PLP.3: 16 residues within 4Å: Chain C: S.73, Q.120, G.121, R.122, E.125, F.145, T.147, T.148, T.202, N.206, D.235, A.237, R.238, S.275, K.277, K.278 21 PLIP interactions: 21 interactions with chain C Hydrophobic interactions: C:F.145, C:F.145, C:T.202, C:N.206, C:K.278 Hydrogen bonds: C:S.73, C:G.121, C:R.122, C:N.206, C:R.238, C:R.238, C:S.275, C:S.275 Water bridges: C:R.122, C:R.122, C:A.237, C:K.277 Salt bridges: C:R.122, C:K.277, C:K.278 pi-Stacking: C:F.145 PLP.4: 16 residues within 4Å: Chain D: S.73, Q.120, G.121, R.122, E.125, F.145, T.147, T.148, T.202, N.206, D.235, A.237, R.238, S.275, K.277, K.278 21 PLIP interactions: 21 interactions with chain D Hydrophobic interactions: D:F.145, D:F.145, D:T.202, D:N.206, D:K.278 Hydrogen bonds: D:S.73, D:G.121, D:R.122, D:N.206, D:R.238, D:R.238, D:S.275, D:S.275 Water bridges: D:R.122, D:R.122, D:A.237, D:K.277 Salt bridges: D:R.122, D:K.277, D:K.278 pi-Stacking: D:F.145

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Graboski, A.L. et al., Mechanism-based inhibition of gut microbial tryptophanases reduces serum indoxyl sulfate. Cell Chem Biol (2023)

Release Date

2023-08-23

Peptides

Tryptophanase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

D
A

Tryptophanase