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

O-Methyltransferase Plu4890 (mutant H229N) in complex with SAH and AQ-270a

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.75 Å

Oligo State

homo-dimer

Ligands

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

SAH.1: 17 residues within 4Å: Chain A: F.127, F.140, M.144, S.148, G.171, G.172, G.173, L.193, D.194, R.195, G.210, N.211, F.212, K.226, N.227, N.231, W.232 11 PLIP interactions: 11 interactions with chain A Hydrogen bonds: A:G.171, A:G.173, A:R.195, A:N.211, A:F.212, A:K.226, A:N.227 Water bridges: A:S.148, A:K.226 Salt bridges: A:K.226 pi-Stacking: A:F.212 SAH.7: 16 residues within 4Å: Chain B: F.127, F.140, M.144, S.148, G.171, G.172, G.173, D.194, R.195, G.210, N.211, F.212, K.226, N.227, N.231, W.232 12 PLIP interactions: 12 interactions with chain B Hydrogen bonds: B:G.171, B:N.211, B:F.212, B:K.226, B:N.227 Water bridges: B:K.137, B:K.137, B:S.148, B:S.148, B:K.226 Salt bridges: B:K.226 pi-Stacking: B:F.212

2 x QPF: 1-methoxy-3,8-bis(oxidanyl)anthracene-9,10-dione(Non-covalent)

QPF.2: 15 residues within 4Å: Chain A: M.89, F.140, L.143, M.144, N.227, N.230, N.231, M.259, F.269, M.273, L.276, F.277, Y.308, Y.311 Ligands: GOL.5 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:F.140, A:Y.308 Hydrogen bonds: A:N.227, A:N.230, A:N.231 Water bridges: A:N.227 pi-Stacking: A:F.269, A:F.269 QPF.8: 16 residues within 4Å: Chain B: F.85, M.89, Y.98, F.140, L.143, M.144, V.147, N.227, N.230, N.231, M.259, F.269, L.276, Y.308, Y.311 Ligands: NA.9 12 PLIP interactions: 11 interactions with chain B, 1 interactions with chain A Hydrophobic interactions: B:F.85, B:F.140, B:V.147, B:Y.308 Hydrogen bonds: B:N.227, B:N.230, B:N.231, B:Y.311 Water bridges: B:N.227, A:R.11 pi-Stacking: B:F.269, B:F.269

4 x NA: SODIUM ION(Non-functional Binders)

NA.3: 2 residues within 4Å: Chain A: E.128, D.131 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:E.128 NA.4: 6 residues within 4Å: Chain A: D.169, G.172, G.175, L.177, L.178, V.192 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:D.169, A:D.169, A:L.177, A:L.178 Water bridges: A:E.176 NA.9: 4 residues within 4Å: Chain B: L.92, Y.98, L.143 Ligands: QPF.8 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:Y.98, B:Y.98 NA.10: 1 residues within 4Å: Chain B: H.27 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:H.27

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.5: 9 residues within 4Å: Chain A: M.89, M.259, S.268, F.269, Y.308 Chain B: E.5, R.11 Ligands: QPF.2, GOL.6 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:E.5, B:R.11, B:R.11 GOL.6: 8 residues within 4Å: Chain A: V.260, K.261, E.262, F.265, S.266, E.281, S.309 Ligands: GOL.5 6 PLIP interactions: 1 interactions with chain B, 5 interactions with chain A Hydrogen bonds: B:E.5, A:V.260, A:E.262, A:S.266, A:S.309 Water bridges: A:E.281

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 H229N mutant: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

B
A

methyltransferase Plu4890 H229N mutant

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