SMTL ID : 7al4.1 (1 other biounit)

Ancestral Flavin-containing monooxygenase (FMO) 1 (mammalian)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.00 Å

Oligo State

homo-dimer

Ligands

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

FAD.1: 33 residues within 4Å: Chain A: V.8, G.9, G.11, V.12, S.13, F.31, E.32, R.33, G.38, G.39, L.40, W.41, G.50, R.51, A.52, L.54, V.58, S.60, N.61, S.62, T.108, K.109, V.110, C.146, T.147, G.148, L.150, F.337, S.377, I.378, I.379 Ligands: NAP.2, GOL.6 25 PLIP interactions: 25 interactions with chain A Hydrophobic interactions: A:L.40, A:L.54, A:V.58, A:L.150 Hydrogen bonds: A:V.12, A:S.13, A:S.13, A:S.13, A:G.14, A:R.33, A:R.33, A:S.34, A:G.38, A:L.40, A:W.41, A:N.61, A:N.61, A:S.62, A:S.62, A:S.62, A:V.110, A:V.110, A:I.378, A:I.379 pi-Stacking: A:W.41 FAD.7: 32 residues within 4Å: Chain B: V.8, G.9, G.11, V.12, S.13, F.31, E.32, R.33, G.38, G.39, L.40, W.41, G.50, R.51, A.52, L.54, V.58, S.60, N.61, S.62, T.108, K.109, V.110, C.146, T.147, G.148, L.150, F.337, S.377, I.378, I.379 Ligands: NAP.8 25 PLIP interactions: 25 interactions with chain B Hydrophobic interactions: B:L.40, B:L.54, B:V.58, B:L.150 Hydrogen bonds: B:V.12, B:S.13, B:S.13, B:S.13, B:R.33, B:R.33, B:S.34, B:S.34, B:G.38, B:L.40, B:W.41, B:N.61, B:N.61, B:S.62, B:S.62, B:S.62, B:V.110, B:V.110, B:I.378, B:I.379 pi-Stacking: B:W.41

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

NAP.2: 26 residues within 4Å: Chain A: Y.55, V.59, N.61, Y.154, P.156, F.160, G.191, M.192, G.193, N.194, S.195, D.198, T.214, T.215, G.216, R.223, R.280, E.281, L.284, A.328, T.329, G.330, Y.331 Ligands: FAD.1, GOL.4, GOL.6 18 PLIP interactions: 18 interactions with chain A Hydrophobic interactions: A:N.194 Hydrogen bonds: A:V.59, A:N.61, A:S.159, A:S.159, A:M.192, A:N.194, A:N.194, A:S.195, A:S.195, A:S.195, A:T.214, A:T.215, A:G.216, A:R.223, A:R.280, A:R.280 Salt bridges: A:R.280 NAP.8: 24 residues within 4Å: Chain B: Y.55, V.59, S.60, N.61, S.159, F.160, G.191, M.192, G.193, N.194, S.195, D.198, T.214, T.215, G.216, R.223, R.280, E.281, L.284, A.328, T.329, G.330, Y.331 Ligands: FAD.7 16 PLIP interactions: 16 interactions with chain B Hydrophobic interactions: B:N.194 Hydrogen bonds: B:V.59, B:N.61, B:S.159, B:S.159, B:S.173, B:M.192, B:S.195, B:S.195, B:T.214, B:T.215, B:G.216, B:R.223, B:R.280, B:E.281 Salt bridges: B:R.280

4 x LMT: DODECYL-BETA-D-MALTOSIDE(Non-covalent)(Non-functional Binders)

LMT.3: 9 residues within 4Å: Chain A: R.238, M.242, N.245, S.246, F.420, D.437, K.446, L.449, F.464 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:F.420 Hydrogen bonds: A:R.238, A:S.246, A:K.446 LMT.9: 3 residues within 4Å: Chain B: D.456, P.457, R.458 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:D.456 LMT.11: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) LMT.12: 8 residues within 4Å: Chain B: M.242, N.245, S.246, F.420, D.437, K.446, L.449, L.450 3 PLIP interactions: 3 interactions with chain B Hydrophobic interactions: B:L.449, B:L.450 Hydrogen bonds: B:S.246

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.4: 6 residues within 4Å: Chain A: Y.154, T.329, G.330, Y.331, K.373 Ligands: NAP.2 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.373, A:K.373 GOL.6: 5 residues within 4Å: Chain A: N.61, S.62, G.376 Ligands: FAD.1, NAP.2 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.61, A:P.374

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

CL.5: 3 residues within 4Å: Chain A: K.177, H.178, I.181 Ligand excluded by PLIP CL.10: 7 residues within 4Å: Chain B: R.42, T.44, R.51, A.52, S.53, L.54, K.177 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Bailleul, G. et al., Ancestral reconstruction of mammalian FMO1 enables structural determination, revealing unique features that explain its catalytic properties. J.Biol.Chem. (2020)

Release Date

2020-12-30

Peptides

Ancestral Flavin-containing monooxygenase 1 (mammalian): AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
D

B
A

Ancestral Flavin-containing monooxygenase 1 (mammalian)

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