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Ligands
Code Name Style Show Link
DMS Dimethyl sulfoxide
EDO 1,2-ethanediol
FQK 8-[4-[1-(cyclobutylmethyl)piperidin-4-yl]pyrazol-1-yl]-3~{H}-pyrido[3,4-D]pyrimidin-4-one
MN Manganese (II) ion
PO4 Phosphate ion
ZN Zinc ion
Non-standard Residues
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Code : 6H51   PDBj   RCSB PDB   PDBe
Header : OXIDOREDUCTASE
Title : Crystal structure of human KDM5B in complex with compound 34f
Release Data : 2019-06-12
Compound :
mol_id molecule chains synonym
1 Lysine-specific demethylase 5B,Lysine-specific demethylase 5B A Cancer/testis antigen 31,CT31,Histone demethylase JARID1B,Jumonji/ARID domain-containing protein 1B,PLU-1,Retinoblastoma-binding protein 2 homolog 1,RBP2-H1,Cancer/testis antigen 31,CT31,Histone demethylase JARID1B,Jumonji/ARID domain-containing protein 1B,PLU-1,Retinoblastoma-binding protein 2 homolog 1,RBP2-H1
ec: 1.14.11.-,1.14.11.-
Source :
mol_id organism_scientific organism_common expression_system
1 Homo sapiens  (taxid:9606) Human Spodoptera frugiperda  (taxid:7108)
gene: KDM5B, JARID1B, PLU1, RBBP2H1
expression_system_common: Fall armyworm
expression_system_cell_line: sf9
expression_system_vector_type: Baculovirus
Authors : Le Bihan, Y.V., Velupillai, S., van Montfort, R.L.M.
Keywords : Histone demethylase, Inhibitor, transcription, OXIDOREDUCTASE
Exp. method : X-RAY DIFFRACTION ( 2.21 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
UniProt : Q9UGL1 (KDM5B_HUMAN)
Reaction: EC: Evidence:
Physiological Direction:
3 2-oxoglutarate + N(6),N(6),N(6)-trimethyl-L-lysyl(4)- [histone H3] + 3 O2 = 3 CO2 + 3 formaldehyde + L-lysyl(4)-[histone H3] + 3 succinate 1.14.11.67 UniProtKB:Q80Y84
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