SMTL ID : 5kr7.1 (1 other biounit)

KDM4C bound to pyrazolo-pyrimidine scaffold

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

monomer

Ligands

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

FE2.1: 4 residues within 4Å: Chain A: H.207, E.209, H.295 Ligands: 6X9.3 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:H.207, A:E.209, A:H.295, H2O.1, H2O.4

1 x ZN: ZINC ION(Non-covalent)

ZN.2: 6 residues within 4Å: Chain A: C.253, H.259, C.325, T.326, C.327, R.328 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.253, A:H.259, A:C.325, A:C.327

1 x 6X9: 6-ethyl-2,5-dimethyl-7-oxidanylidene-4~{H}-pyrazolo[1,5-a]pyrimidine-3-carbonitrile(Non-covalent)

6X9.3: 12 residues within 4Å: Chain A: Y.151, Y.196, T.202, T.203, F.204, H.207, N.217, K.225, W.227, H.295, N.299 Ligands: FE2.1 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:Y.151, A:Y.151, A:Y.196, A:F.204, A:F.204, A:K.225, A:W.227 Hydrogen bonds: A:N.299 Water bridges: A:G.198 pi-Stacking: A:F.204

1 x CL: CHLORIDE ION(Non-functional Binders)

CL.4: 3 residues within 4Å: Chain A: P.128, N.143, W.200 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Gehling, V.S. et al., Identification of potent, selective KDM5 inhibitors. Bioorg.Med.Chem.Lett. (2016)

Release Date

2016-08-17

Peptides

Lysine-specific demethylase 4C: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Lysine-specific demethylase 4C

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