SMTL ID : 7zkh.1

C-Methyltransferase PsmD from Streptomyces griseofuscus with bound cofactor (crystal form 1)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.40 Å

Oligo State

homo-dimer

Ligands

2 x UNL: UNKNOWN LIGAND

UNL.1: 13 residues within 4Å: Chain A: T.19, Y.23, L.26, A.30, W.34, E.36, E.158, W.167, W.183, V.196, Y.198, H.218, L.220 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:Y.23, A:L.26, A:W.167, A:V.196, A:H.218 Water bridges: A:T.19, A:E.36 UNL.4: 13 residues within 4Å: Chain B: T.19, Y.23, L.26, A.30, W.34, E.36, E.158, W.167, W.183, V.196, Y.198, H.218, L.220 7 PLIP interactions: 7 interactions with chain B Hydrophobic interactions: B:Y.23, B:L.26, B:W.167, B:V.196, B:H.218 Water bridges: B:T.19, B:E.36

2 x PGE: TRIETHYLENE GLYCOL(Non-functional Binders)

PGE.2: 4 residues within 4Å: Chain A: V.57, R.77, G.78, Y.79 No protein-ligand interaction detected (PLIP) PGE.5: 4 residues within 4Å: Chain B: V.57, R.77, G.78, Y.79 No protein-ligand interaction detected (PLIP)

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

SAH.3: 19 residues within 4Å: Chain A: M.2, Y.16, Y.23, R.39, C.64, C.65, G.66, D.85, R.86, S.87, M.90, I.107, E.108, L.109, T.123, A.124, A.126, Y.129, Q.130 17 PLIP interactions: 17 interactions with chain A Hydrogen bonds: A:Y.23, A:E.62, A:C.64, A:G.66, A:R.86, A:L.109, A:L.109, A:T.123, A:T.123, A:T.123, A:Q.130 Water bridges: A:P.15, A:G.68, A:M.70, A:E.108, A:Y.129 Salt bridges: A:R.39 SAH.6: 19 residues within 4Å: Chain B: M.2, Y.16, Y.23, R.39, C.64, C.65, G.66, D.85, R.86, S.87, M.90, I.107, E.108, L.109, T.123, A.124, A.126, Y.129, Q.130 17 PLIP interactions: 17 interactions with chain B Hydrogen bonds: B:Y.23, B:E.62, B:C.64, B:G.66, B:R.86, B:L.109, B:L.109, B:T.123, B:T.123, B:T.123, B:Q.130 Water bridges: B:P.15, B:G.68, B:M.70, B:E.108, B:Y.129 Salt bridges: B:R.39

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Amariei, D.A. et al., Enzymatic C3-Methylation of Indoles Using Methyltransferase PsmD-Crystal Structure, Catalytic Mechanism, and Preparative Applications. Acs Catalysis (2022)

Release Date

2022-12-28

Peptides

Methyltransferase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Methyltransferase

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