SMTL ID : 2gv8.1

Crystal structure of flavin-containing monooxygenase (FMO) from S.pombe and NADPH cofactor complex

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.10 Å

Oligo State

homo-dimer

Ligands

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

FAD.1: 30 residues within 4Å: Chain A: G.13, A.14, G.15, P.16, S.17, G.18, F.37, E.38, R.39, R.40, G.45, V.46, W.47, P.83, L.84, L.88, T.90, N.91, T.92, T.136, D.137, V.138, C.172, N.173, G.174, Y.176, F.296, P.342, F.343 Ligands: NDP.2 30 PLIP interactions: 30 interactions with chain A Hydrophobic interactions: A:P.83, A:L.84, A:Y.176 Hydrogen bonds: A:A.14, A:G.15, A:S.17, A:S.17, A:G.18, A:R.39, A:R.39, A:R.40, A:G.45, A:V.46, A:W.47, A:N.91, A:N.91, A:T.92, A:T.92, A:V.138, A:V.138 Water bridges: A:A.14, A:E.38, A:G.174, A:Y.176, A:Y.176, A:F.343 pi-Stacking: A:W.47, A:W.47 pi-Cation interactions: A:R.39, A:R.39 FAD.4: 30 residues within 4Å: Chain B: G.13, A.14, G.15, P.16, S.17, G.18, F.37, E.38, R.39, R.40, G.45, V.46, W.47, P.83, L.84, L.88, T.90, N.91, T.92, T.136, D.137, V.138, C.172, N.173, G.174, Y.176, F.296, P.342, F.343 Ligands: NDP.5 31 PLIP interactions: 31 interactions with chain B Hydrophobic interactions: B:P.83, B:L.84, B:Y.176 Hydrogen bonds: B:A.14, B:S.17, B:S.17, B:G.18, B:R.39, B:R.39, B:R.40, B:G.45, B:V.46, B:W.47, B:N.91, B:N.91, B:T.92, B:D.137, B:V.138, B:V.138 Water bridges: B:A.14, B:G.15, B:S.17, B:S.17, B:E.38, B:R.39, B:N.173, B:F.343 pi-Stacking: B:W.47, B:W.47 pi-Cation interactions: B:R.39, B:R.39

2 x NDP: NADPH DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE(Non-covalent)

NDP.2: 21 residues within 4Å: Chain A: Y.85, L.88, Q.89, T.90, N.91, Y.176, V.218, G.219, G.220, A.221, S.222, S.223, D.226, S.242, L.243, L.244, C.287, T.288, G.289, Y.290 Ligands: FAD.1 22 PLIP interactions: 22 interactions with chain A Hydrogen bonds: A:N.91, A:Y.176, A:G.220, A:S.222, A:S.223, A:S.223, A:D.226, A:G.289 Water bridges: A:N.91, A:Y.176, A:S.201, A:A.221, A:S.222, A:S.222, A:S.222, A:A.224, A:R.229, A:R.229, A:L.244, A:I.260, A:G.289, A:Y.290 NDP.5: 21 residues within 4Å: Chain B: Y.85, L.88, Q.89, T.90, N.91, Y.176, V.218, G.219, G.220, A.221, S.222, S.223, D.226, S.242, L.243, L.244, C.287, T.288, G.289, Y.290 Ligands: FAD.4 18 PLIP interactions: 18 interactions with chain B Hydrogen bonds: B:Y.85, B:N.91, B:Y.176, B:Y.176, B:G.220, B:S.222, B:S.223, B:S.223, B:D.226, B:L.244, B:G.289 Water bridges: B:Q.89, B:N.91, B:S.201, B:A.221, B:S.223, B:A.224, B:Y.290

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 7 residues within 4Å: Chain A: Y.49, S.51, R.86, E.206 Chain B: S.42, N.48, T.50 4 PLIP interactions: 2 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:E.206, B:S.42, B:N.48 Water bridges: A:R.114 GOL.6: 7 residues within 4Å: Chain A: S.42, N.48, T.50 Chain B: Y.49, S.51, R.86, E.206 7 PLIP interactions: 5 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:Y.49, B:E.206, A:S.42, A:N.48 Water bridges: B:R.114, B:R.114, B:E.206

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Eswaramoorthy, S. et al., Mechanism of action of a flavin-containing monooxygenase. Proc.Natl.Acad.Sci.Usa (2006)

Release Date

2006-06-06

Peptides

monooxygenase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

monooxygenase

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