SMTL ID : 5iq1.1

Crystal structure of RnTmm mutant Y207S

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.75 Å

Oligo State

homo-dimer

Ligands

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

NAP.1: 23 residues within 4Å: Chain A: Y.67, L.70, W.71, N.73, F.165, N.169, P.171, Y.173, M.203, A.205, S.206, S.207, S.208, D.211, R.229, S.230, C.271, T.272, G.273, Y.274, N.291, R.413 Ligands: FAD.2 35 PLIP interactions: 35 interactions with chain A Hydrophobic interactions: A:D.211 Hydrogen bonds: A:Y.67, A:W.71, A:N.73, A:N.73, A:N.169, A:Y.173, A:A.205, A:S.206, A:S.207, A:S.207, A:S.208, A:R.229, A:S.230, A:N.291, A:R.413 Water bridges: A:Y.173, A:Y.173, A:G.204, A:A.205, A:S.206, A:S.206, A:S.208, A:S.208, A:A.209, A:R.229, A:R.229, A:A.231, A:Y.274, A:Y.274, A:D.317, A:D.317 Salt bridges: A:R.229 pi-Cation interactions: A:R.229, A:R.229 NAP.3: 23 residues within 4Å: Chain B: Y.67, L.70, W.71, N.73, F.165, N.169, P.171, Y.173, M.203, A.205, S.206, S.207, S.208, D.211, R.229, S.230, C.271, T.272, G.273, Y.274, N.291, R.413 Ligands: FAD.4 36 PLIP interactions: 36 interactions with chain B Hydrophobic interactions: B:D.211 Hydrogen bonds: B:Y.67, B:W.71, B:N.73, B:N.73, B:N.169, B:Y.173, B:A.205, B:S.206, B:S.207, B:S.207, B:S.207, B:S.208, B:R.229, B:N.291, B:R.413 Water bridges: B:Y.173, B:Y.173, B:G.204, B:A.205, B:S.206, B:S.206, B:S.208, B:S.208, B:A.209, B:R.229, B:R.229, B:S.230, B:S.230, B:A.231, B:Y.274, B:Y.274, B:D.317 Salt bridges: B:R.229 pi-Cation interactions: B:R.229, B:R.229

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

FAD.2: 30 residues within 4Å: Chain A: I.8, G.9, G.11, P.12, S.13, F.37, E.38, K.39, Q.40, G.45, L.46, W.47, H.63, S.65, M.66, S.72, N.73, L.79, P.125, V.126, A.161, S.162, G.163, F.165, F.280, Q.318, T.321, F.322, F.325 Ligands: NAP.1 24 PLIP interactions: 24 interactions with chain A Hydrophobic interactions: A:L.46, A:F.165 Hydrogen bonds: A:G.11, A:S.13, A:S.13, A:K.39, A:Q.40, A:L.46, A:W.47, A:N.73, A:V.126, A:V.126, A:T.321 Water bridges: A:G.14, A:G.45, A:S.72, A:G.74, A:G.163, A:H.164, A:Q.318, A:Q.318, A:T.321 Salt bridges: A:H.63 pi-Stacking: A:W.47 FAD.4: 30 residues within 4Å: Chain B: I.8, G.9, G.11, P.12, S.13, F.37, E.38, K.39, Q.40, G.45, L.46, W.47, H.63, S.65, M.66, S.72, N.73, L.79, P.125, V.126, A.161, S.162, G.163, F.165, F.280, Q.318, T.321, F.322, F.325 Ligands: NAP.3 26 PLIP interactions: 26 interactions with chain B Hydrophobic interactions: B:L.46, B:F.165 Hydrogen bonds: B:G.11, B:S.13, B:S.13, B:K.39, B:Q.40, B:Q.40, B:L.46, B:W.47, B:N.73, B:V.126, B:V.126, B:T.321 Water bridges: B:G.14, B:G.45, B:H.63, B:G.74, B:G.74, B:G.163, B:H.164, B:H.164, B:Q.318, B:T.321 Salt bridges: B:H.63 pi-Stacking: B:W.47

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Li, C.Y. et al., Structural mechanism for bacterial oxidation of oceanic trimethylamine into trimethylamine N-oxide. Mol. Microbiol. (2017)

Release Date

2017-01-18

Peptides

Flavin-containing monooxygenase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Flavin-containing monooxygenase

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