SMTL ID : 8b2d.1

CRYSTAL STRUCTURE OF BACTERIAL FLAVIN CONTAINING MONOOXYGENASE THERMORESISTANT MUTANT, IN COMPLEX WITH NADP+

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.62 Å

Oligo State

homo-dimer

Ligands

2 x SO4: SULFATE ION(Non-functional Binders)

SO4.1: 3 residues within 4Å: Chain A: A.29, M.337, R.339 2 PLIP interactions: 2 interactions with chain A Water bridges: A:R.339 Salt bridges: A:R.339 SO4.9: 2 residues within 4Å: Chain B: R.117 Ligands: BTB.7 1 PLIP interactions: 1 interactions with chain B Salt bridges: B:R.117

6 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 2 residues within 4Å: Chain A: R.117, F.122 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.117 Water bridges: A:A.41, A:D.42, A:I.120 GOL.3: 3 residues within 4Å: Chain A: A.354, W.355, R.358 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.358, A:R.358 GOL.6: 4 residues within 4Å: Chain A: T.364, D.365, E.366, K.405 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:D.365, A:E.366, A:K.405 GOL.8: 6 residues within 4Å: Chain B: Q.40, A.41, N.48, T.50, R.52, E.57 9 PLIP interactions: 9 interactions with chain B Hydrogen bonds: B:Q.40, B:A.41, B:N.48 Water bridges: B:Q.40, B:D.42, B:D.42, B:T.50, B:D.56, B:H.63 GOL.12: 5 residues within 4Å: Chain B: T.364, D.365, E.366, K.401, K.405 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:D.365, B:E.366, B:K.405 GOL.13: 3 residues within 4Å: Chain B: A.354, W.355, R.358 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:R.358

2 x FAD: FLAVIN-ADENINE DINUCLEOTIDE(Non-covalent)

FAD.4: 32 residues within 4Å: Chain A: G.9, A.10, G.11, P.12, S.13, F.37, E.38, K.39, Q.40, G.45, Q.46, W.47, H.63, S.65, M.66, L.70, S.72, N.73, L.79, T.124, A.125, V.126, C.161, T.162, G.163, F.165, F.280, Q.318, S.321, F.322, F.325 Ligands: NAP.5 28 PLIP interactions: 28 interactions with chain A Hydrophobic interactions: A:L.70, A:F.165 Hydrogen bonds: A:A.10, A:G.11, A:S.13, A:S.13, A:S.13, A:K.39, A:Q.40, A:G.45, A:Q.46, A:Q.46, A:W.47, A:N.73, A:V.126, A:V.126, A:Q.318, A:S.321 Water bridges: A:G.14, A:K.39, A:N.73, A:G.74, A:G.163, A:H.164, A:S.321 Salt bridges: A:H.63 pi-Stacking: A:W.47 pi-Cation interactions: A:K.39 FAD.10: 31 residues within 4Å: Chain B: G.9, G.11, P.12, S.13, F.37, E.38, K.39, Q.40, G.45, Q.46, W.47, H.63, S.65, M.66, L.70, S.72, N.73, L.79, T.124, A.125, V.126, C.161, T.162, G.163, F.165, F.280, Q.318, S.321, F.322, F.325 Ligands: NAP.11 29 PLIP interactions: 29 interactions with chain B Hydrophobic interactions: B:L.70, B:F.165 Hydrogen bonds: B:G.11, B:S.13, B:S.13, B:K.39, B:Q.40, B:G.45, B:Q.46, B:Q.46, B:W.47, B:N.73, B:V.126, B:V.126, B:Q.318, B:S.321 Water bridges: B:S.13, B:S.13, B:G.14, B:K.39, B:H.63, B:S.72, B:G.74, B:H.164, B:F.165, B:S.321 Salt bridges: B:H.63 pi-Stacking: B:W.47 pi-Cation interactions: B:K.39

2 x NAP: NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE(Non-covalent)

NAP.5: 24 residues within 4Å: Chain A: Y.67, L.70, W.71, N.73, F.165, Y.169, F.173, V.203, G.204, S.205, S.206, Y.207, S.208, D.211, R.229, T.230, N.246, C.271, T.272, G.273, Y.274, N.291, R.412 Ligands: FAD.4 25 PLIP interactions: 25 interactions with chain A Hydrophobic interactions: A:D.211 Hydrogen bonds: A:W.71, A:N.73, A:N.73, A:S.205, A:S.205, A:S.206, A:S.208, A:T.230, A:T.230, A:N.246, A:N.291, A:R.412 Water bridges: A:Y.169, A:S.206, A:S.208, A:S.208, A:A.209, A:R.229, A:R.229, A:Y.274, A:Y.274, A:Y.274 Salt bridges: A:R.229 pi-Cation interactions: A:R.229 NAP.11: 25 residues within 4Å: Chain B: Y.67, L.70, W.71, N.73, F.165, Y.169, P.171, F.173, V.203, G.204, S.205, S.206, Y.207, S.208, D.211, R.229, T.230, N.246, C.271, T.272, G.273, Y.274, N.291, R.412 Ligands: FAD.10 25 PLIP interactions: 25 interactions with chain B Hydrophobic interactions: B:D.211 Hydrogen bonds: B:Y.67, B:W.71, B:N.73, B:N.73, B:S.205, B:S.205, B:S.206, B:Y.207, B:S.208, B:R.229, B:T.230, B:N.246, B:N.291, B:R.412 Water bridges: B:W.71, B:S.206, B:S.208, B:S.208, B:A.209, B:R.229, B:Y.274, B:Y.274 Salt bridges: B:R.229 pi-Cation interactions: B:R.229

1 x BTB: 2-[BIS-(2-HYDROXY-ETHYL)-AMINO]-2-HYDROXYMETHYL-PROPANE-1,3-DIOL(Non-covalent)

BTB.7: 6 residues within 4Å: Chain B: R.117, K.118, I.120, R.121, F.122 Ligands: SO4.9 3 PLIP interactions: 3 interactions with chain B Water bridges: B:R.117, B:I.120, B:F.122

2 x CL: CHLORIDE ION(Non-functional Binders)

CL.14: 1 residues within 4Å: Chain B: R.244 Ligand excluded by PLIP CL.15: 1 residues within 4Å: Chain B: R.339 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Goris, M. et al., Increased Thermostability of an Engineered Flavin-Containing Monooxygenase to Remediate Trimethylamine in Fish Protein Hydrolysates. Appl.Environ.Microbiol. (2023)

Release Date

2023-06-14

Peptides

Flavin-containing monooxygenase, Fmo: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Flavin-containing monooxygenase, Fmo