SMTL ID : 8t1s.1

Structure of the alpha-N-methyltransferase (SonM) and RiPP precursor (SonA with QSY deletion) heteromeric complex (bound to SAH)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

hetero-2-2-mer

Ligands

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

SAH.1: 18 residues within 4Å: Chain A: L.10, Y.92, G.93, H.94, V.97, F.98, S.123, A.124, W.165, Q.166, Y.205, E.206, A.207, P.232, I.233, S.234, T.235 Chain B: I.69 10 PLIP interactions: 10 interactions with chain A Hydrogen bonds: A:H.94, A:V.97, A:A.124, A:Q.166, A:A.207, A:A.207, A:S.234, A:T.235 Water bridges: A:N.209, A:S.234 SAH.3: 18 residues within 4Å: Chain C: L.10, Y.92, G.93, H.94, V.97, F.98, S.123, A.124, W.165, Q.166, Y.205, E.206, A.207, P.232, I.233, S.234, T.235 Chain D: I.69 10 PLIP interactions: 10 interactions with chain C Hydrophobic interactions: C:W.165 Hydrogen bonds: C:H.94, C:V.97, C:A.124, C:Q.166, C:A.207, C:A.207, C:S.234 Water bridges: C:N.209, C:S.234

1 x ZN: ZINC ION(Non-covalent)

ZN.2: 4 residues within 4Å: Chain A: E.125, H.141 Chain C: E.125, H.141 5 PLIP interactions: 2 interactions with chain A, 2 interactions with chain C, 1 Ligand-Water interactions Metal complexes: A:E.125, A:H.141, C:E.125, C:H.141, H2O.1

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Crone, K.K. et al., RiPP enzyme heterocomplex structure-guided discovery of a bacterial borosin alpha- N -methylated peptide natural product. Rsc Chem Biol (2023)

Release Date

2023-11-22

Peptides

Alpha-N-methyltransferase: AC
Extradiol ring-cleavage dioxygenase LigAB LigA subunit domain-containing protein: BD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
C

B
B

D
D

Alpha-N-methyltransferase

Extradiol ring-cleavage dioxygenase LigAB LigA subunit domain-containing protein

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