SMTL ID : 2vd7.2 (1 other biounit)

Crystal Structure of JMJD2A complexed with inhibitor Pyridine-2,4- dicarboxylic acid

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.25 Å

Oligo State

monomer

Ligands

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

NI.1: 4 residues within 4Å: Chain A: H.210, E.212, H.298 Ligands: PD2.3 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.210, A:E.212, A:H.298, H2O.4

1 x ZN: ZINC ION(Non-covalent)

ZN.2: 5 residues within 4Å: Chain A: C.256, H.262, C.328, S.329, C.330 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.256, A:H.262, A:C.328, A:C.330

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

PD2.3: 11 residues within 4Å: Chain A: Y.154, Y.199, F.207, H.210, E.212, N.220, K.228, W.230, K.263, H.298 Ligands: NI.1 16 PLIP interactions: 16 interactions with chain A Hydrophobic interactions: A:F.207, A:W.230 Hydrogen bonds: A:Y.199, A:N.220 Water bridges: A:Y.199, A:Y.199, A:K.263, A:K.263, A:K.263, A:K.263, A:S.310, A:S.310 Salt bridges: A:H.210, A:K.228, A:K.263 pi-Stacking: A:F.207

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Rose, N.R. et al., Inhibitor scaffolds for 2-oxoglutarate-dependent histone lysine demethylases. J. Med. Chem. (2008)

Release Date

2007-11-27

Peptides

JMJC DOMAIN-CONTAINING HISTONE DEMETHYLATION PROTEIN 3A: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

JMJC DOMAIN-CONTAINING HISTONE DEMETHYLATION PROTEIN 3A

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