SMTL ID : 7oy1.1

DnrK mutant RTCR

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.39 Å

Oligo State

homo-dimer

Ligands

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

SAH.1: 17 residues within 4Å: Chain A: Y.153, R.163, F.166, M.170, G.197, G.198, G.199, E.220, M.221, G.246, D.247, F.248, S.262, F.263, N.267, W.268 Ligands: 3VL.2 13 PLIP interactions: 13 interactions with chain A Hydrogen bonds: A:R.163, A:R.163, A:G.197, A:D.247, A:D.247, A:F.248, A:S.262 Water bridges: A:D.167, A:S.262, A:S.262, A:S.262 pi-Stacking: A:Y.153, A:F.248 SAH.3: 17 residues within 4Å: Chain B: Y.153, R.163, M.170, G.197, G.198, G.199, L.219, E.220, M.221, G.246, D.247, F.248, S.262, F.263, N.267, W.268 Ligands: 3VL.4 13 PLIP interactions: 13 interactions with chain B Hydrogen bonds: B:R.163, B:R.163, B:G.197, B:D.247, B:F.248, B:S.262 Water bridges: B:D.167, B:D.167, B:S.262, B:S.262, B:S.262 pi-Stacking: B:Y.153, B:F.248

2 x 3VL: methyl (1R,2R,4S)-2-ethyl-2,5,7-trihydroxy-6,11-dioxo-4-{[2,3,6-trideoxy-3-(dimethylamino)-alpha-L-lyxo-hexopyranosyl]oxy}-1,2,3,4,6,11-hexahydrotetracene-1-carboxylate(Non-covalent)

3VL.2: 14 residues within 4Å: Chain A: W.116, Y.153, F.166, M.170, T.172, F.263, N.267, F.307, L.310, L.311, R.314, M.315, V.352 Ligands: SAH.1 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:W.116, A:F.166, A:F.166, A:T.172, A:L.311 Hydrogen bonds: A:Y.153, A:T.172, A:N.267, A:R.314 Salt bridges: A:D.178, A:R.314 3VL.4: 17 residues within 4Å: Chain B: W.116, V.123, Y.153, F.166, M.170, T.172, V.177, F.263, N.267, F.307, L.310, L.311, R.314, M.315, F.318, L.354 Ligands: SAH.3 11 PLIP interactions: 11 interactions with chain B Hydrophobic interactions: B:W.116, B:F.166, B:F.166, B:T.172, B:L.311, B:F.318, B:L.354 Hydrogen bonds: B:T.172, B:F.263, B:N.267, B:R.314

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Dinis, P. et al., Evolution-inspired engineering of anthracycline methyltransferases. Pnas Nexus (2023)

Release Date

2022-07-13

Peptides

Carminomycin 4-O-methyltransferase DnrK,Methyltransferase domain-containing protein,Aclacinomycin 10-hydroxylase RdmB: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Carminomycin 4-O-methyltransferase DnrK,Methyltransferase domain-containing protein,Aclacinomycin 10-hydroxylase RdmB