SMTL ID : 8bgt.1 (1 other biounit)

O-Methyltransferase Plu4890 in complex with SAM

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.15 Å

Oligo State

homo-dimer

Ligands

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

SAM.1: 17 residues within 4Å: Chain A: F.127, M.144, S.148, G.171, G.172, G.173, D.194, R.195, N.211, F.212, L.213, K.226, N.227, V.228, N.231, W.232 Ligands: GOL.4 11 PLIP interactions: 11 interactions with chain A Hydrogen bonds: A:S.148, A:G.171, A:G.173, A:N.211, A:F.212 Water bridges: A:K.226, A:K.226, A:K.226 Salt bridges: A:K.226 pi-Stacking: A:F.127, A:F.212 SAM.7: 17 residues within 4Å: Chain B: F.127, M.144, S.148, G.171, G.172, G.173, D.194, R.195, N.211, F.212, L.213, K.226, N.227, V.228, N.231, W.232 Ligands: GOL.10 11 PLIP interactions: 11 interactions with chain B Hydrogen bonds: B:S.148, B:G.171, B:G.173, B:N.211, B:F.212 Water bridges: B:K.226, B:K.226, B:K.226 Salt bridges: B:K.226 pi-Stacking: B:F.127, B:F.212

2 x TRP: TRYPTOPHAN(Non-covalent)

TRP.2: 11 residues within 4Å: Chain A: M.89, L.92, Y.98, F.140, L.143, M.144, F.269, L.272, M.273, Y.308 Chain B: R.11 4 PLIP interactions: 3 interactions with chain A, 1 interactions with chain B Hydrophobic interactions: A:F.140, A:L.272 Hydrogen bonds: A:Y.98, B:R.11 TRP.8: 11 residues within 4Å: Chain A: R.11 Chain B: M.89, L.92, Y.98, F.140, L.143, M.144, F.269, L.272, M.273, Y.308 5 PLIP interactions: 4 interactions with chain B, 1 interactions with chain A Hydrophobic interactions: B:F.140, B:L.272 Hydrogen bonds: B:Y.98, B:Y.98, A:R.11

8 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 3 residues within 4Å: Chain A: D.21, G.23, K.91 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.21, A:K.91 GOL.4: 4 residues within 4Å: Chain A: R.195, N.211 Ligands: SAM.1, GOL.5 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.211 GOL.5: 4 residues within 4Å: Chain A: D.131, Y.196, S.197 Ligands: GOL.4 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:D.131 GOL.6: 2 residues within 4Å: Chain A: L.213, D.236 No protein-ligand interaction detected (PLIP) GOL.9: 3 residues within 4Å: Chain B: D.21, G.23, K.91 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:D.21, B:D.21, B:K.91 GOL.10: 4 residues within 4Å: Chain B: R.195, N.211 Ligands: SAM.7, GOL.11 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.211 GOL.11: 4 residues within 4Å: Chain B: D.131, Y.196, S.197 Ligands: GOL.10 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:D.131 GOL.12: 2 residues within 4Å: Chain B: L.213, D.236 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Huber, E.M. et al., A set of closely related methyltransferases for site-specific tailoring of anthraquinone pigments. Structure (2023)

Release Date

2023-03-08

Peptides

Methyltransferase Plu4890: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Methyltransferase Plu4890

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