SMTL ID : 5y7t.1

Quaternary complex of AsqJ-Fe3+-2OG-D-cyclopeptin

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.05 Å

Oligo State

monomer

Ligands

1 x FE: FE (III) ION(Non-covalent)

FE.1: 5 residues within 4Å: Chain A: H.141, D.143, H.218 Ligands: 8R0.2, AKG.3 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.141, A:D.143, A:H.218, H2O.1

1 x 8R0: (3R)-4-methyl-3-(phenylmethyl)-1,3-dihydro-1,4-benzodiazepine-2,5-dione(Non-covalent)

8R0.2: 18 residues within 4Å: Chain A: N.77, V.79, L.80, L.86, M.125, M.129, Q.138, P.139, H.141, R.142, D.143, M.144, F.146, N.164, T.234, T.236 Ligands: FE.1, AKG.3 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:V.79, A:L.86, A:P.139, A:H.141, A:F.146, A:T.234 Hydrogen bonds: A:N.77, A:M.144 Water bridges: A:R.145, A:F.146 pi-Stacking: A:H.141

1 x AKG: 2-OXOGLUTARIC ACID(Non-covalent)

AKG.3: 15 residues within 4Å: Chain A: L.80, M.129, L.131, Q.138, H.141, D.143, L.166, T.179, H.218, C.219, G.220, R.230, L.232 Ligands: FE.1, 8R0.2 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:L.166 Hydrogen bonds: A:Q.138 Salt bridges: A:H.141, A:R.230

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Liao, H.J. et al., Insights into the Desaturation of Cyclopeptin and its C3 Epimer Catalyzed by a non-Heme Iron Enzyme: Structural Characterization and Mechanism Elucidation. Angew. Chem. Int. Ed. Engl. (2018)

Release Date

2018-01-24

Peptides

Iron/alpha-ketoglutarate-dependent dioxygenase asqJ: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

Iron/alpha-ketoglutarate-dependent dioxygenase asqJ