SMTL ID : 8urd.1

Bacillus niacini flavin monooxygenase with bound (2,6)DHP

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

homo-trimer

Ligands

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

FAD.1: 24 residues within 4Å: Chain A: V.36, G.37, G.39, P.40, A.41, L.59, E.60, Q.61, N.62, R.70, G.71, E.72, I.73, V.156, V.201, D.202, G.203, T.207, G.330, D.331, G.343, S.344, A.347 Ligands: WTQ.2 14 PLIP interactions: 14 interactions with chain A Hydrogen bonds: A:G.39, A:A.41, A:Q.61, A:Q.61, A:N.62, A:N.62, A:R.70, A:E.72, A:I.73, A:I.73, A:V.156, A:V.156, A:D.331, A:S.344 FAD.3: 25 residues within 4Å: Chain B: V.36, G.39, P.40, A.41, G.42, E.60, Q.61, E.68, Y.69, R.70, G.71, E.72, I.73, Q.131, V.156, V.201, D.202, G.203, N.205, L.310, D.331, G.343, S.344, A.347 Ligands: WTQ.4 17 PLIP interactions: 17 interactions with chain B Hydrophobic interactions: B:L.310 Hydrogen bonds: B:G.39, B:A.41, B:G.42, B:E.60, B:Q.61, B:R.70, B:R.70, B:E.72, B:I.73, B:I.73, B:Q.131, B:Q.131, B:V.156, B:D.331, B:G.343, B:S.344 FAD.7: 27 residues within 4Å: Chain C: V.36, G.39, P.40, A.41, G.42, E.60, Q.61, E.68, Y.69, R.70, G.71, E.72, I.73, Q.131, V.156, V.201, D.202, G.203, N.205, T.207, L.310, D.331, A.341, G.343, S.344, A.347 Ligands: WTQ.9 15 PLIP interactions: 15 interactions with chain C Hydrophobic interactions: C:L.310 Hydrogen bonds: C:G.39, C:A.41, C:G.42, C:Q.61, C:E.72, C:I.73, C:I.73, C:Q.131, C:Q.131, C:T.207, C:T.207, C:D.331, C:D.331, C:S.344

3 x WTQ: pyridine-2,6-diol(Non-covalent)

WTQ.2: 6 residues within 4Å: Chain A: I.73, W.227, L.254, P.338, A.341 Ligands: FAD.1 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:P.338 Hydrogen bonds: A:W.227 WTQ.4: 7 residues within 4Å: Chain B: Y.69, I.73, W.227, L.254, Q.262, P.338 Ligands: FAD.3 5 PLIP interactions: 5 interactions with chain B Hydrophobic interactions: B:W.227, B:P.338 Hydrogen bonds: B:Y.69, B:Q.262, B:P.338 WTQ.9: 5 residues within 4Å: Chain C: W.227, L.254, Q.262, P.338 Ligands: FAD.7 3 PLIP interactions: 3 interactions with chain C Hydrophobic interactions: C:W.227, C:P.338 Hydrogen bonds: C:Q.262

3 x DR9: 1-CIS-9-OCTADECANOYL-2-CIS-9-HEXADECANOYL PHOSPHATIDYL GLYCEROL(Non-covalent)

DR9.5: 20 residues within 4Å: Chain A: F.243, W.339, T.392, I.393, K.395, F.396, L.397, K.403, I.406, A.407, M.410, F.411, A.414, I.420, L.423 Chain C: I.406, L.409, S.412, I.413, K.416 24 PLIP interactions: 18 interactions with chain A, 6 interactions with chain C Hydrophobic interactions: A:F.243, A:W.339, A:T.392, A:I.393, A:I.393, A:K.395, A:F.396, A:F.396, A:F.396, A:F.396, A:L.397, A:K.403, A:K.403, A:I.406, A:A.407, A:F.411, A:A.414, A:I.420, C:I.406, C:L.409, C:L.409 Hydrogen bonds: C:S.412, C:S.412 Salt bridges: C:K.416 DR9.6: 19 residues within 4Å: Chain B: M.112, F.245, W.339, T.392, I.393, K.395, F.396, L.397, K.403, I.406, M.410, F.411, A.414, L.423 Chain C: K.395, K.403, M.410, I.413 Ligands: DR9.8 16 PLIP interactions: 12 interactions with chain B, 4 interactions with chain C Hydrophobic interactions: B:F.245, B:W.339, B:T.392, B:I.393, B:I.393, B:K.395, B:F.396, B:F.396, B:L.397, B:K.403, B:I.406, C:I.413 Hydrogen bonds: B:T.392, C:K.403 Salt bridges: C:K.395, C:K.395 DR9.8: 21 residues within 4Å: Chain B: K.395, M.410 Chain C: M.112, F.243, F.245, W.339, T.392, I.393, K.395, F.396, T.398, K.403, I.406, A.407, F.411, A.414, I.420, L.423, Y.424, K.426 Ligands: DR9.6 20 PLIP interactions: 2 interactions with chain B, 18 interactions with chain C Salt bridges: B:K.395, B:K.395 Hydrophobic interactions: C:F.243, C:F.243, C:F.245, C:W.339, C:T.392, C:I.393, C:K.395, C:K.395, C:F.396, C:F.396, C:K.403, C:I.406, C:F.411, C:F.411, C:A.414, C:I.420, C:Y.424 Hydrogen bonds: C:K.426

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Richardson, B.C. et al., Structural and Functional Characterization of a Novel Class A Flavin Monooxygenase from Bacillus niacini. Biochemistry (2024)

Release Date

2024-09-18

Peptides

Flavin monooxygenase: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

Flavin monooxygenase

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