SMTL ID : 6kbw.1

Crystal structure of Tmm from Myroides profundi D25

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.69 Å

Oligo State

homo-dimer

Ligands

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

NAP.1: 24 residues within 4Å: Chain A: Y.68, L.71, W.72, N.74, F.166, N.170, P.172, F.174, I.204, S.206, S.207, Y.208, S.209, D.212, R.230, T.231, I.247, C.272, T.273, G.274, Y.275, N.292, R.413 Ligands: FAD.2 28 PLIP interactions: 28 interactions with chain A Hydrophobic interactions: A:D.212 Hydrogen bonds: A:W.72, A:N.74, A:N.74, A:N.170, A:S.206, A:S.206, A:S.207, A:Y.208, A:S.209, A:R.230, A:N.292, A:R.413 Water bridges: A:N.74, A:S.206, A:S.207, A:S.209, A:S.209, A:A.210, A:R.230, A:T.231, A:Y.275, A:D.318, A:Q.319, A:Q.319 Salt bridges: A:R.230 pi-Cation interactions: A:R.230, A:R.230 NAP.3: 24 residues within 4Å: Chain B: Y.68, L.71, W.72, N.74, F.166, N.170, P.172, F.174, I.204, S.206, S.207, Y.208, S.209, D.212, R.230, T.231, I.247, C.272, T.273, G.274, Y.275, N.292, R.413 Ligands: FAD.4 22 PLIP interactions: 22 interactions with chain B Hydrophobic interactions: B:D.212 Hydrogen bonds: B:W.72, B:N.170, B:S.206, B:S.206, B:S.207, B:Y.208, B:S.209, B:T.231, B:N.292, B:R.413 Water bridges: B:W.72, B:S.209, B:S.209, B:A.210, B:R.230, B:Y.275, B:Y.275, B:D.318 Salt bridges: B:R.230 pi-Cation interactions: B:R.230, B:R.230

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

FAD.2: 31 residues within 4Å: Chain A: I.9, G.10, G.12, P.13, S.14, Y.38, E.39, K.40, Q.41, G.46, M.47, W.48, H.64, S.66, M.67, S.73, N.74, L.80, T.125, V.126, A.127, G.162, T.163, G.164, F.166, F.281, Q.319, T.322, F.323, F.326 Ligands: NAP.1 22 PLIP interactions: 22 interactions with chain A Hydrophobic interactions: A:F.166 Hydrogen bonds: A:S.14, A:S.14, A:K.40, A:Q.41, A:M.47, A:W.48, A:N.74, A:A.127, A:A.127, A:Q.319 Water bridges: A:G.12, A:G.12, A:S.14, A:S.14, A:K.40, A:G.46, A:G.75, A:T.322 Salt bridges: A:H.64 pi-Stacking: A:W.48, A:W.48 FAD.4: 31 residues within 4Å: Chain B: I.9, G.10, G.12, P.13, S.14, Y.38, E.39, K.40, Q.41, G.46, M.47, W.48, H.64, S.66, M.67, L.71, S.73, N.74, L.80, T.125, V.126, A.127, G.162, T.163, G.164, F.166, F.281, Q.319, T.322, F.326 Ligands: NAP.3 22 PLIP interactions: 22 interactions with chain B Hydrophobic interactions: B:L.71, B:F.166 Hydrogen bonds: B:S.14, B:S.14, B:K.40, B:Q.41, B:Q.41, B:M.47, B:W.48, B:N.74, B:A.127, B:A.127 Water bridges: B:G.12, B:G.12, B:K.40, B:G.46, B:N.74, B:N.74, B:H.165, B:Q.319 Salt bridges: B:H.64 pi-Stacking: B:W.48

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Qin, Q.L. et al., Oxidation of trimethylamine to trimethylamine N-oxide facilitates high hydrostatic pressure tolerance in a generalist bacterial lineage. Sci Adv (2021)

Release Date

2020-07-08

Peptides

Trimethylamine monooxygenase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Trimethylamine monooxygenase