SMTL ID : 3pur.2 (1 other biounit)

CEKDM7A from C.Elegans, complex with D-2-HG

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.10 Å

Oligo State

monomer

Ligands

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

FE2.1: 4 residues within 4Å: Chain A: H.312, D.314, H.384 Ligands: 2HG.4 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.312, A:D.314, A:H.384, H2O.1

2 x ZN: ZINC ION(Non-covalent)

ZN.2: 4 residues within 4Å: Chain A: C.15, C.18, H.69, C.72 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.15, A:C.18, A:H.69, A:C.72 ZN.3: 4 residues within 4Å: Chain A: C.61, C.64, C.88, C.91 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.61, A:C.64, A:C.88, A:C.91

1 x 2HG: (2R)-2-hydroxypentanedioic acid(Non-covalent)

2HG.4: 9 residues within 4Å: Chain A: K.45, T.309, H.312, D.314, Y.322, K.329, H.384, V.386 Ligands: FE2.1 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:T.309, A:V.386 Hydrogen bonds: A:T.309, A:T.309 Water bridges: A:T.309, A:N.398 Salt bridges: A:K.45, A:H.312, A:K.329

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Xu, W. et al., Oncometabolite 2-hydroxyglutarate is a competitive inhibitor of alpha-ketoglutarate-dependent dioxygenases. Cancer Cell (2011)

Release Date

2011-01-26

Peptides

Lysine-specific demethylase 7 homolog: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

Lysine-specific demethylase 7 homolog

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