SMTL ID : 3o1o.1

Iron-Catalyzed Oxidation Intermediates Captured in A DNA Repair Dioxygenase

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.92 Å

Oligo State

monomer

Ligands

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

AKG.1: 15 residues within 4Å: Chain A: L.108, N.110, Y.112, L.118, H.121, D.123, S.135, H.177, I.179, R.194, N.196, T.198, R.200 Chain B: X.8 Ligands: MN.2 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:L.118, A:I.179 Hydrogen bonds: A:S.135, A:S.135, A:T.198 Water bridges: A:N.196, A:R.200, A:R.200 Salt bridges: A:H.121, A:R.194, A:R.200

1 x MN: MANGANESE (II) ION(Non-covalent)

MN.2: 5 residues within 4Å: Chain A: H.121, D.123, H.177, R.200 Ligands: AKG.1 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.121, A:D.123, A:H.177, H2O.3

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Yi, C. et al., Iron-catalysed oxidation intermediates captured in a DNA repair dioxygenase. Nature (2010)

Release Date

2010-11-17

Peptides

Alpha-ketoglutarate-dependent dioxygenase AlkB: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Alpha-ketoglutarate-dependent dioxygenase AlkB

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