SMTL ID : 2w2i.1 (2 other biounits)

Crystal structure of the human 2-oxoglutarate oxygenase LOC390245

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.10 Å

Oligo State

monomer

Ligands

1 x NI: NICKEL (II) ION(Non-covalent)

NI.1: 4 residues within 4Å: Chain A: H.211, E.213, H.299 Ligands: PD2.2 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.211, A:E.213, A:H.299, H2O.5

1 x PD2: PYRIDINE-2,4-DICARBOXYLIC ACID(Non-covalent)

PD2.2: 11 residues within 4Å: Chain A: Y.155, Y.200, F.208, H.211, E.213, N.221, K.229, W.231, K.264, H.299 Ligands: NI.1 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:F.208, A:W.231 Hydrogen bonds: A:Y.200, A:N.221 Water bridges: A:T.207 Salt bridges: A:H.211, A:K.229, A:K.264 pi-Stacking: A:F.208

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 9 residues within 4Å: Chain A: A.48, D.49, F.50, K.169, Q.170, W.171, N.172, H.175, L.176 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:A.48, A:F.50, A:W.171, A:N.172, A:N.172, A:L.176 GOL.4: 6 residues within 4Å: Chain A: G.102, G.103, W.145, S.269, P.270, T.271 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.269, A:T.271, A:T.271

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Hillringhaus, L. et al., Structural and Evolutionary Basis for the Dual Substrate Selectivity of Human Kdm4 Histone Demethylase Family. J.Biol.Chem. (2011)

Release Date

2009-01-20

Peptides

2-OXOGLUTARATE OXYGENASE: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

2-OXOGLUTARATE OXYGENASE

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