SMTL ID : 9dge.1

Tetrahydroprotoberberine N-methyltransferase product complex with dextromethorphan and SAM

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.60 Å

Oligo State

homo-dimer

Ligands

2 x SAM: S-ADENOSYLMETHIONINE(Non-covalent)

SAM.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: 4NQ.2 15 PLIP interactions: 15 interactions with chain A Hydrogen bonds: A:Q.123, A:S.124, A:G.162, A:G.164, A:N.186, A:N.186, A:Q.190, A:D.212, A:V.213 Water bridges: A:Q.123, A:C.163, A:G.167, A:T.185, A:T.230 Salt bridges: A:K.122 SAM.4: 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: 4NQ.5 15 PLIP interactions: 15 interactions with chain B Hydrogen bonds: B:Q.123, B:S.124, B:G.162, B:G.164, 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:G.167, B:T.230 Salt bridges: B:K.122

2 x 4NQ: 3-methoxy-17-methyl-9alpha,13alpha,14alpha-morphinan(Non-covalent)

4NQ.2: 12 residues within 4Å: Chain A: Q.123, E.229, E.232, H.233, F.282, M.315, V.319, W.322, F.357, G.361, F.365 Ligands: SAM.1 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:F.282, A:W.322, A:F.357, A:F.365 Salt bridges: A:E.232 pi-Stacking: A:F.357 4NQ.5: 12 residues within 4Å: Chain B: Q.123, E.229, E.232, H.233, F.282, M.315, V.319, W.322, F.357, G.361, F.365 Ligands: SAM.4 6 PLIP interactions: 6 interactions with chain B Hydrophobic interactions: B:F.282, B:W.322, B:F.357, B:F.365 Salt bridges: B:E.232 pi-Stacking: B:F.357

2 x SO4: SULFATE ION(Non-functional Binders)

SO4.3: 8 residues within 4Å: Chain A: I.62, F.63, R.66, H.266, F.268, E.269, D.275, S.278 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:E.269, A:S.278 Salt bridges: A:R.66, A:H.266 SO4.6: 8 residues within 4Å: Chain B: I.62, F.63, R.66, H.266, F.268, E.269, D.275, S.278 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:E.269, B:D.275, B:S.278 Salt bridges: B:R.66, B:H.266

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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