Brand  (β version)

  The number of atoms exceeds 100,000.
  So, it can not be displayed here.

Select unit:

Select hetatm:   

close
information
centroid:
interaction residue:

Select chain:   Sequence  

Data format:   

Color scheme of protein:

Ligands
Code Name Style Show Link
ZN Zinc ion
FQQ 8-[4-[2-[4-(3-chlorophenyl)-4-methyl-piperidin-1-yl]ethyl]pyrazol-1-yl]-3~{H}-pyrido[3,4-D]pyrimidin-4-one
DMS Dimethyl sulfoxide
CL Chloride ion
Non-standard Residues
Code Name Show
Glycosylation
Code Name Emphasize
Modification
Code Name Show
Code : 6H4W   PDBj   RCSB PDB   PDBe
Header : OXIDOREDUCTASE
Title : Crystal structure of human KDM4A in complex with compound 19d
Release Data : 2019-06-12
Compound :
mol_id molecule chains synonym
1 Lysine-specific demethylase 4A A,B,C,D JmjC domain-containing histone demethylation protein 3A,Jumonji domain-containing protein 2A
ec: 1.14.11.-
Source :
mol_id organism_scientific organism_common expression_system
1 Homo sapiens  (taxid:9606) Human Escherichia coli  (taxid:562)
gene: KDM4A, JHDM3A, JMJD2, JMJD2A, KIAA0677
expression_system_variant: Rosetta (DE3)
expression_system_vector_type: Plasmid
Authors : Le Bihan, Y.V., van Montfort, R.L.M.
Keywords : Histone demethylase, Inhibitor, transcription, OXIDOREDUCTASE
Exp. method : X-RAY DIFFRACTION ( 2.81 Å )
Citation :

C8-substituted pyrido[3,4-d]pyrimidin-4(3H)-ones: Studies towards the identification of potent, cell penetrant Jumonji C domain containing histone lysine demethylase 4 subfamily (KDM4) inhibitors, compound profiling in cell-based target engagement assays.

Le Bihan, Y.V.,Lanigan, R.M.,Atrash, B.  et al.
(2019)  Eur.J.Med.Chem.  177 : 316 - 337

PubMed: 31158747
DOI: 10.1016/j.ejmech.2019.05.041

Chain : A, B, C, D
UniProt : O75164 (KDM4A_HUMAN)
Reaction: EC: Evidence:
Physiological Direction:
2 2-oxoglutarate + N(6),N(6),N(6)-trimethyl-L-lysyl(9)- [histone H3] + 2 O2 = 2 CO2 + 2 formaldehyde + N(6)-methyl-L- lysyl(9)-[histone H3] + 2 succinate 1.14.11.66 PubMed:16603238
-
2 2-oxoglutarate + N(6),N(6),N(6)-trimethyl-L-lysyl(36)- [histone H3] + 2 O2 = 2 CO2 + 2 formaldehyde + N(6)-methyl-L- lysyl(36)-[histone H3] + 2 succinate 1.14.11.69 PubMed:16603238
-