SMTL ID : 8uke.3 (2 other biounits)

Crystal Structure of Norbelladine O-methyltransferase variant in complex with SAH

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.40 Å

Oligo State

homo-dimer

Ligands

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

SAH.1: 19 residues within 4Å: Chain A: M.53, L.54, V.55, G.79, V.80, Y.81, Y.84, S.85, D.103, V.104, N.105, Y.108, S.130, E.131, A.132, D.155, A.156, D.157, Y.164 18 PLIP interactions: 18 interactions with chain A Hydrophobic interactions: A:Y.81 Hydrogen bonds: A:M.53, A:V.55, A:G.79, A:Y.81, A:Y.84, A:S.85, A:V.104, A:N.105, A:A.132, A:D.157, A:D.157, A:Y.164 Water bridges: A:G.83, A:G.83, A:L.86, A:N.160, A:N.160 SAH.3: 19 residues within 4Å: Chain B: M.53, L.54, V.55, E.77, G.79, V.80, Y.81, Y.84, S.85, D.103, V.104, Y.108, S.130, E.131, A.132, D.155, A.156, D.157, Y.164 20 PLIP interactions: 20 interactions with chain B Hydrophobic interactions: B:Y.81 Hydrogen bonds: B:V.55, B:Y.81, B:Y.84, B:S.85, B:S.85, B:S.85, B:V.104, B:A.132, B:D.155, B:D.157, B:D.157, B:Y.164 Water bridges: B:G.83, B:G.83, B:G.83, B:L.86, B:Y.108, B:L.133, B:N.160

2 x CA: CALCIUM ION(Non-covalent)

CA.2: 3 residues within 4Å: Chain A: D.155, D.181, N.182 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.155, A:D.155, A:D.181, H2O.1, H2O.2 CA.4: 3 residues within 4Å: Chain B: D.155, D.181, N.182 2 PLIP interactions: 2 interactions with chain B Metal complexes: B:D.155, B:D.181

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

d'Oelsnitz, S. et al., Biosensor and machine learning-aided engineering of an amaryllidaceae enzyme. Nat Commun (2024)

Release Date

2024-03-20

Peptides

Norbelladine 4'-O-methyltransferase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
D

B
F

Norbelladine 4'-O-methyltransferase

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