SMTL ID : 6se3.1 (2 other biounits)

Crystal Structure of Ancestral Flavin-containing monooxygenase (FMO) 3-6

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.80 Å

Oligo State

homo-dimer

Ligands

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

FAD.1: 30 residues within 4Å: Chain A: I.8, G.9, A.10, G.11, V.12, S.13, F.31, E.32, R.33, G.38, G.39, L.40, W.41, G.50, R.51, I.54, T.60, N.61, S.62, T.108, L.109, V.110, C.146, S.147, G.148, H.150, F.337, A.377, T.378 Ligands: NAP.2 29 PLIP interactions: 29 interactions with chain A Hydrophobic interactions: A:L.40, A:I.54 Hydrogen bonds: A:A.10, A:S.13, A:S.13, A:S.13, A:R.33, A:G.38, A:L.40, A:W.41, A:R.51, A:N.61, A:N.61, A:S.62, A:S.62, A:S.62, A:V.110, A:V.110, A:H.150, A:T.378, A:T.378 Water bridges: A:V.12, A:V.12, A:Y.152, A:I.379, A:I.379 pi-Stacking: A:W.41 pi-Cation interactions: A:R.33, A:R.33 FAD.4: 31 residues within 4Å: Chain B: I.8, G.9, A.10, G.11, V.12, S.13, F.31, E.32, R.33, G.39, L.40, W.41, G.50, R.51, I.54, V.58, T.60, N.61, S.62, M.67, T.108, L.109, V.110, C.146, S.147, G.148, H.150, F.337, A.377, T.378 Ligands: NAP.5 25 PLIP interactions: 25 interactions with chain B Hydrophobic interactions: B:L.40, B:I.54, B:V.58 Hydrogen bonds: B:V.12, B:S.13, B:S.13, B:S.13, B:R.33, B:G.38, B:L.40, B:W.41, B:R.51, B:N.61, B:N.61, B:S.62, B:S.62, B:S.62, B:V.110, B:V.110, B:H.150, B:T.378, B:T.378 pi-Stacking: B:W.41 pi-Cation interactions: B:R.33, B:R.33

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

NAP.2: 26 residues within 4Å: Chain A: Y.55, F.59, T.60, N.61, H.150, N.154, P.156, F.160, I.190, G.191, L.192, G.193, N.194, S.195, D.198, R.215, S.216, R.223, K.280, E.281, A.328, T.329, G.330, Y.331, Q.373 Ligands: FAD.1 22 PLIP interactions: 22 interactions with chain A Hydrophobic interactions: A:N.194 Hydrogen bonds: A:F.59, A:N.61, A:N.154, A:L.192, A:L.192, A:N.194, A:N.194, A:S.195, A:S.195, A:G.196, A:R.215, A:S.216, A:S.216, A:R.223, A:E.281, A:Q.373 Water bridges: A:R.215 Salt bridges: A:R.215, A:K.280 pi-Cation interactions: A:R.215, A:R.215 NAP.5: 28 residues within 4Å: Chain B: Y.55, F.59, T.60, N.61, H.150, N.154, P.156, F.160, I.190, G.191, L.192, G.193, N.194, S.195, G.196, D.198, R.215, S.216, R.223, K.280, E.281, N.302, A.328, T.329, G.330, Y.331, Q.373 Ligands: FAD.4 23 PLIP interactions: 23 interactions with chain B Hydrophobic interactions: B:N.194 Hydrogen bonds: B:F.59, B:N.61, B:N.154, B:L.192, B:L.192, B:N.194, B:S.195, B:S.195, B:G.196, B:R.215, B:S.216, B:S.216, B:R.223, B:E.281, B:N.302, B:Q.373 Water bridges: B:Y.331, B:Y.331 Salt bridges: B:R.215, B:K.280 pi-Cation interactions: B:R.215, B:R.215

2 x OXY: OXYGEN MOLECULE(Non-covalent)

OXY.3: 4 residues within 4Å: Chain A: N.61, S.374, L.375, G.376 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.61 OXY.6: 4 residues within 4Å: Chain B: N.61, S.62, L.375, G.376 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.61

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Nicoll, C.R. et al., Ancestral-sequence reconstruction unveils the structural basis of function in mammalian FMOs. Nat.Struct.Mol.Biol. (2020)

Release Date

2019-12-25

Peptides

Ancestral Flavin-containing monooxygenase (FMO) 3-6: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
D

B
B

Ancestral Flavin-containing monooxygenase (FMO) 3-6

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