SMTL ID : 7jm5.1 (1 other biounit)

Crystal structure of KDM4B in complex with QC6352

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.70 Å

Oligo State

monomer

Ligands

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

NI.1: 4 residues within 4Å: Chain A: H.190, E.192, H.278 Ligands: 9DJ.2 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:H.190, A:E.192, A:H.278, H2O.1, H2O.1

1 x 9DJ: 3-[({(1R)-6-[methyl(phenyl)amino]-1,2,3,4-tetrahydronaphthalen-1-yl}methyl)amino]pyridine-4-carboxylic acid(Non-covalent)

9DJ.2: 16 residues within 4Å: Chain A: I.73, Q.86, N.88, Y.134, Y.179, T.186, F.187, H.190, E.192, N.200, K.208, W.210, H.242, K.243, H.278 Ligands: NI.1 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:I.73, A:Y.134, A:Y.134, A:Y.179, A:W.210 Hydrogen bonds: A:Y.134, A:Y.179, A:N.200 Salt bridges: A:K.208 pi-Stacking: A:F.187 pi-Cation interactions: A:K.243

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Singh, S. et al., Targeting KDM4 for treating PAX3-FOXO1-driven alveolar rhabdomyosarcoma. Sci Transl Med (2022)

Release Date

2022-02-02

Peptides

Lysine-specific demethylase 4B: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Lysine-specific demethylase 4B

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