SMTL ID : 9dgd.1

Tetrahydroprotoberberine N-methyltransferase in complex with boldine and SAH

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

homo-dimer

Ligands

2 x SAH: S-ADENOSYL-L-HOMOCYSTEINE(Non-covalent)

SAH.1: 17 residues within 4Å: Chain A: K.122, Q.123, S.124, G.162, C.163, G.164, L.184, N.186, Q.190, A.211, D.212, V.213, I.228, E.229, T.230, M.234 Ligands: GHT.2 13 PLIP interactions: 13 interactions with chain A Hydrogen bonds: A:Q.123, A:S.124, A:G.162, A:N.186, A:N.186, A:Q.190, A:D.212, A:V.213 Water bridges: A:Q.123, A:C.163, A:T.185, A:I.228 Salt bridges: A:K.122 SAH.3: 17 residues within 4Å: Chain B: K.122, Q.123, S.124, G.162, C.163, G.164, L.184, N.186, Q.190, A.211, D.212, V.213, I.228, E.229, T.230, M.234 Ligands: GHT.4 13 PLIP interactions: 13 interactions with chain B Hydrogen bonds: B:Q.123, B:S.124, B:G.162, B:N.186, B:N.186, B:Q.190, B:D.212, B:D.212, B:V.213 Water bridges: B:Q.123, B:C.163, B:I.228 Salt bridges: B:K.122

2 x GHT: Boldine(Covalent)

GHT.2: 11 residues within 4Å: Chain A: Q.123, S.124, H.233, F.268, F.282, M.315, W.322, F.357, Q.364, F.365 Ligands: SAH.1 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:Q.123, A:F.365 Hydrogen bonds: A:Q.364, A:Q.364 Water bridges: A:Y.277, A:Y.277 pi-Stacking: A:F.357, A:F.357 GHT.4: 11 residues within 4Å: Chain B: Q.123, S.124, H.233, F.268, F.282, M.315, W.322, F.357, Q.364, F.365 Ligands: SAH.3 6 PLIP interactions: 6 interactions with chain B Hydrophobic interactions: B:Q.123, B:F.365 Hydrogen bonds: B:Q.364, B:Q.364 pi-Stacking: B:F.357, B:F.357

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lang, D.E. et al., The stereospecific activities of the tetrahydroprotoberberine N-methyltransferase with alternative substrates provide insight into the catalytic mechanisms of benzylisoquinoline alkaloid N-methylation. To Be Published

Release Date

2025-09-17

Peptides

Tetrahydroprotoberberine N-methyltransferase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Tetrahydroprotoberberine N-methyltransferase

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