SMTL ID : 6y9c.1

The structure of a quaternary ammonium Rieske monooxygenase reveals insights into carnitine oxidation by gut microbiota and inter-subunit electron transfer

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

homo-trimer

Ligands

3 x FE: FE (III) ION(Non-covalent)

FE.1: 4 residues within 4Å: Chain A: H.228, H.233, D.343 Ligands: SCN.3 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.228, A:H.233, A:D.343, A:D.343, H2O.1 FE.5: 4 residues within 4Å: Chain B: H.228, H.233, D.343 Ligands: SCN.7 5 PLIP interactions: 4 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:H.228, B:H.233, B:D.343, B:D.343, H2O.5 FE.9: 4 residues within 4Å: Chain C: H.228, H.233, D.343 Ligands: SCN.11 5 PLIP interactions: 4 interactions with chain C, 1 Ligand-Water interactions Metal complexes: C:H.228, C:H.233, C:D.343, C:D.343, H2O.8

3 x 152: CARNITINE(Non-covalent)

152.2: 13 residues within 4Å: Chain A: N.222, Y.223, E.225, F.236, Y.245, Q.256, F.278, N.290, I.301, Y.315, F.339, D.343 Ligands: SCN.3 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:Y.223 Hydrogen bonds: A:Y.223, A:Y.223, A:N.290 pi-Cation interactions: A:Y.223 152.6: 13 residues within 4Å: Chain B: N.222, Y.223, E.225, F.236, Y.245, Q.256, F.278, N.290, I.301, Y.315, F.339, D.343 Ligands: SCN.7 5 PLIP interactions: 5 interactions with chain B Hydrophobic interactions: B:Y.223 Hydrogen bonds: B:Y.223, B:Y.223, B:N.290 pi-Cation interactions: B:Y.223 152.10: 13 residues within 4Å: Chain C: N.222, Y.223, E.225, F.236, Y.245, Q.256, F.278, N.290, I.301, Y.315, F.339, D.343 Ligands: SCN.11 5 PLIP interactions: 5 interactions with chain C Hydrophobic interactions: C:Y.223 Hydrogen bonds: C:Y.223, C:Y.223, C:N.290 pi-Cation interactions: C:Y.223

3 x SCN: THIOCYANATE ION(Non-functional Binders)

SCN.3: 7 residues within 4Å: Chain A: H.228, A.229, H.233, F.339, D.343 Ligands: FE.1, 152.2 No protein-ligand interaction detected (PLIP) SCN.7: 7 residues within 4Å: Chain B: H.228, A.229, H.233, F.339, D.343 Ligands: FE.5, 152.6 No protein-ligand interaction detected (PLIP) SCN.11: 7 residues within 4Å: Chain C: H.228, A.229, H.233, F.339, D.343 Ligands: FE.9, 152.10 No protein-ligand interaction detected (PLIP)

3 x FES: FE2/S2 (INORGANIC) CLUSTER(Non-covalent)

FES.4: 10 residues within 4Å: Chain A: C.106, H.108, R.109, G.110, H.111, C.126, Y.128, H.129, A.130, W.131 4 PLIP interactions: 4 interactions with chain A, Metal complexes: A:C.106, A:H.108, A:C.126, A:H.129 FES.8: 10 residues within 4Å: Chain B: C.106, H.108, R.109, G.110, H.111, C.126, Y.128, H.129, A.130, W.131 4 PLIP interactions: 4 interactions with chain B, Metal complexes: B:C.106, B:H.108, B:C.126, B:H.129 FES.12: 10 residues within 4Å: Chain C: C.106, H.108, R.109, G.110, H.111, C.126, Y.128, H.129, A.130, W.131 4 PLIP interactions: 4 interactions with chain C, Metal complexes: C:C.106, C:H.108, C:C.126, C:H.129

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Quareshy, M. et al., Characterisation of an unusual cysteine pair in the Rieske carnitine monooxygenase CntA catalytic site. Febs J. (2023)

Release Date

2021-03-31

Peptides

Carnitine monooxygenase oxygenase subunit: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

Carnitine monooxygenase oxygenase subunit