SMTL ID : 6dax.1

X-ray crystal structure of VioC bound to Fe(II), L-homoarginine, and 2-oxoglutarate

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.70 Å

Oligo State

monomer

Ligands

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

AKG.1: 14 residues within 4Å: Chain A: V.126, S.138, L.145, H.148, E.150, L.163, T.174, H.296, R.298, R.310, L.312, R.314 Ligands: HRG.2, FE2.3 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:L.145, A:L.163 Hydrogen bonds: A:S.138 Water bridges: A:R.298 Salt bridges: A:R.310, A:R.314

1 x HRG: L-HOMOARGININE(Non-covalent)

HRG.2: 15 residues within 4Å: Chain A: Q.117, L.136, V.137, S.138, L.145, G.146, H.148, E.150, D.202, S.204, D.248, D.250, F.251, R.314 Ligands: AKG.1 10 PLIP interactions: 10 interactions with chain A Hydrogen bonds: A:Q.117, A:L.136, A:S.138, A:E.150, A:S.204 Water bridges: A:Q.118, A:G.146, A:D.250 Salt bridges: A:D.248, A:D.250

1 x FE2: FE (II) ION(Non-covalent)

FE2.3: 4 residues within 4Å: Chain A: H.148, E.150, H.296 Ligands: AKG.1 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:H.148, A:E.150, A:H.296

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Dunham, N.P. et al., Two Distinct Mechanisms for C-C Desaturation by Iron(II)- and 2-(Oxo)glutarate-Dependent Oxygenases: Importance of alpha-Heteroatom Assistance. J. Am. Chem. Soc. (2018)

Release Date

2018-05-16

Peptides

Alpha-ketoglutarate-dependent L-arginine hydroxylase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Alpha-ketoglutarate-dependent L-arginine hydroxylase

Related Entries With Identical Sequence