SMTL ID : 6a2e.1

Apo structure of the Kdo hydroxylase KdoO, a non-heme Fe(II) alphaketoglutarate dependent dioxygenase

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.94 Å

Oligo State

monomer

Ligands

3 x ACT: ACETATE ION(Non-functional Binders)

ACT.1: 4 residues within 4Å: Chain A: R.174, W.176, V.262, L.268 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:W.176 Hydrogen bonds: A:W.176 Water bridges: A:R.127, A:R.174 Salt bridges: A:R.174 ACT.2: 3 residues within 4Å: Chain A: R.76, A.122, H.274 3 PLIP interactions: 3 interactions with chain A Salt bridges: A:R.76, A:R.123, A:H.274 ACT.3: 3 residues within 4Å: Chain A: K.200, R.214, L.222 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:L.222 Salt bridges: A:K.200, A:R.214

1 x SO4: SULFATE ION(Non-functional Binders)

SO4.4: 3 residues within 4Å: Chain A: K.276, N.278, S.304 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:N.278, A:S.304 Water bridges: A:N.278 Salt bridges: A:K.276

1 x PG4: TETRAETHYLENE GLYCOL(Non-functional Binders)

PG4.5: 3 residues within 4Å: Chain A: A.106, H.109, L.110 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Joo, S.H. et al., Biochemical and Structural Insights into an Fe(II)/ alpha-Ketoglutarate/O2-Dependent Dioxygenase, Kdo 3-Hydroxylase (KdoO). J. Mol. Biol. (2018)

Release Date

2018-09-05

Peptides

Kdo hydroxylase, KdoO: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Kdo hydroxylase, KdoO

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