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

Crystal structure of human JMJD2C catalytic domain in complex with epitherapuetic compound 2-(((2-((2-(dimethylamino)ethyl) (ethyl)amino) -2-oxoethyl)amino)methyl)isonicotinic acid

Coordinates

PDB Format

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.192, E.194, H.280 Ligands: MMK.2 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.192, A:E.194, A:H.280, H2O.7

1 x MMK: 2-{[(2-{[(E)-2-(dimethylamino)ethenyl](ethyl)amino}-2-oxoethyl)amino]methyl}pyridine-4-carboxylic acid(Non-covalent)

MMK.2: 15 residues within 4Å: Chain A: Y.136, D.139, Y.181, F.189, H.192, E.194, N.202, K.210, W.212, K.245, H.280, S.292, T.293, N.294 Ligands: NI.1 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:F.189, A:W.212 Hydrogen bonds: A:N.202, A:K.245 Water bridges: A:S.292, A:N.294 Salt bridges: A:K.210 pi-Stacking: A:F.189

1 x ZN: ZINC ION(Non-covalent)

ZN.3: 5 residues within 4Å: Chain A: C.238, H.244, C.310, T.311, C.312 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.238, A:H.244, A:C.310, A:C.312

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

CL.4: 3 residues within 4Å: Chain A: P.113, N.128, W.185 Ligand excluded by PLIP

1 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.5: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Cecatiello, V. et al., Crystal Structures of Human Jmjd2C Catalytic Domain Bound to Inhibitors. To be Published

Release Date

2015-10-21

Peptides

LYSINE-SPECIFIC DEMETHYLASE 4C: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

LYSINE-SPECIFIC DEMETHYLASE 4C

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