You are using an outdated browser. Please upgrade your browser to improve your experience.

Tbio
KDM3B
Lysine-specific demethylase 3B

Protein Summary
Description
Histone demethylase that specifically demethylates 'Lys-9' of histone H3, thereby playing a central role in histone code. Demethylation of Lys residue generates formaldehyde and succinate. May have tumor suppressor activity.
Uniprot Accession IDs
Gene Name
Ensembl ID
  • ENST00000314358
  • ENSP00000326563
  • ENSG00000120733
  • ENST00000542866
  • ENSP00000439462

Symbol
  • C5orf7
  • JHDM2B
  • JMJD1B
  • KIAA1082
  • 5qNCA
  • NET22
  • C5orf7
  • JMJD1B
Illumination Graph
Knowledge Table
Most Knowledge About
Knowledge Value (0 to 1 scale)
co-expressed gene
0.96
disease perturbation
0.83
transcription factor binding site profile
0.81
microRNA
0.75
transcription factor
0.68


Related Tools
Target Illumination GWAS Analytics (TIGA)
TIGA scores and ranks GWAS discovered associations according to the quantity and quality of the evidence supporting the association.
GENEVA
GENEVA (GENe Expression Variance Analysis) allows you to identify RNA-sequencing datasets from the Gene Expression Omnibus (GEO) that contain conditions modulating a gene or a gene signature.
GlyGen
GlyGen is a data integration and dissemination project for carbohydrate and glycoconjugate related data.
ARCHS4
ARCHS4 provides access to gene-function predictions based on RNA-seq co-expression, and gene expression levels across cell and tissues.
IDG Development Level Summary
Tdark

These are targets about which virtually nothing is known. They do not have known drug or small molecule activities
- AND - satisfy two or more of the following criteria:

Pubmed score: 23.08   (req: < 5)
Gene RIFs: 6   (req: <= 3)
Antibodies: 330   (req: <= 50)
Tbio

These targets do not have known drug or small molecule activities
- AND - satisfy two or more of the following criteria:

Pubmed score: 23.08   (req: >= 5)
Gene RIFs: 6   (req: > 3)
Antibodies: 330   (req: > 50)

- OR - satisfy the following criterion:

Gene Ontology Terms: 9
Tchem

Target has at least one ChEMBL compound with an activity cutoff of < 30 nM - AND - satisfies the preceding conditions

Active Ligand: 0
Tclin

Target has at least one approved drug - AND - satisfies the preceding conditions

Active Drug: 0
GWAS Traits (6)
GWAS Trait
EFO ID
Study Count
SNP Count
Beta Count
Odds Ratio
Evidence (Mean Rank Score)
Provenance
age at menarche
2
2
1
2.4
78.8
sleep duration
1
1
1
48.4
response to radiation
1
1
0
3.1
30.9
prostate carcinoma
1
1
0
3.1
30.9
1
1
0
1.1
14.5
GWAS Trait
EFO ID
Beta Count
Odds Ratio
Evidence (Mean Rank Score)
Provenance
age at menarche
1
2.4
78.8
sleep duration
1
48.4
response to radiation
0
3.1
30.9
prostate carcinoma
0
3.1
30.9
0
1.1
14.5
Orthologs (11)
1 – 5 of 11
Species
Name
Source ID
Gene ID
OMA
EggNOG
Inparanoid
Chimp
lysine demethylase 3B
VGNC:8625
462095
Macaque
lysine demethylase 3B
716648
Mouse
MGI:1923356
277250
Rat
RGD:1583423
682469
Dog
lysine demethylase 3B
VGNC:42323
474695
Species
Name
OMA
EggNOG
Inparanoid
Chimp
lysine demethylase 3B
Macaque
lysine demethylase 3B
Mouse
Rat
Dog
lysine demethylase 3B
Protein Structure (1 Structure, 1 AlphaFold Model)
RepresentationColor Scheme

Click on a row in the table to change the structure displayed.
More information can be found at RCSB PDB

AF-Q7LBC6-F1-model_v1

AlphaFold Structures Developed by DeepMind and EMBL-EBI

1 – 1 of 1
PDB Structure Id
Ligand
Method
Resolution (Å)
Residues
Fraction of Total Protein
Pub Year
Title
PDB Structure Id
Fraction of Total Protein
Resolution
Pub Year
Pathways (10)
Chromatin modifying enzymes (R-HSA-3247509)

Click on a row in the table to change the structure displayed.

Items per page:
1 – 3 of 3
Data Source
Name
Explore in Pharos
Explore in Source
Reactome
Chromatin modifying enzymes
Reactome
Chromatin organization
Reactome
HDMs demethylate histones
Name
Explore in Pharos
Explore in Source
Chromatin modifying enzymes
Chromatin organization
HDMs demethylate histones
Gene Ontology Terms (12)
Items per page:
10
1 – 7 of 7
GO Term
Evidence
Assigned by
Inferred from Biological aspect of Ancestor (IBA)
GO_Central
Inferred from Biological aspect of Ancestor (IBA)
GO_Central
Inferred from Biological aspect of Ancestor (IBA)
GO_Central
Traceable Author Statement (TAS)
Reactome
Inferred from Electronic Annotation (IEA)
Ensembl
Inferred from Electronic Annotation (IEA)
UniProtKB-KW
Inferred from Electronic Annotation (IEA)
UniProtKB-KW
Protein-Protein Interactions (90)
1 – 10 of 90
TH
Tclin
Family: Enzyme
Novelty: 0.00025719
p_int: 0.99999982
p_ni: 1.79e-7
p_wrong: 1e-9
Score: 0.188
Data Source: BioPlex,STRINGDB
MRPL38
Tdark
Novelty: 0.71587283
p_int: 0.999982999
p_ni: 0.000017001
Data Source: BioPlex
TRIM11
Tbio
Family: Enzyme
Novelty: 0.02243955
p_int: 0.999949875
p_ni: 0.000050125
Data Source: BioPlex
ALOX5
Tclin
Family: Enzyme
Novelty: 0.00062988
p_int: 0.999916692
p_ni: 0.000083308
Data Source: BioPlex
CALML3
Tbio
Novelty: 0.0336689
p_int: 0.999908024
p_ni: 0.000091956
p_wrong: 2e-8
Data Source: BioPlex
PLOD1
Tbio
Family: Enzyme
Novelty: 0.00905345
p_int: 0.993798826
p_ni: 0.00620115
p_wrong: 2.4e-8
Score: 0.221
Data Source: BioPlex,STRINGDB
RFPL4B
Tdark
Novelty: 2.42779597
p_int: 0.993066965
p_ni: 0.006933026
p_wrong: 9e-9
Data Source: BioPlex
SERPINB2
Tbio
Novelty: 0.00204345
p_int: 0.990454225
p_ni: 0.009545752
p_wrong: 2.3e-8
Data Source: BioPlex
SMYD3
Tchem
Family: Epigenetic
Novelty: 0.01040802
p_int: 0.958719081
p_ni: 0.041009623
p_wrong: 0.000271295
Score: 0.617
Data Source: BioPlex,STRINGDB
THRSP
Tbio
Novelty: 0.00938864
p_int: 0.882346458
p_ni: 0.096732657
p_wrong: 0.020920885
Data Source: BioPlex
Publication Statistics
PubMed Score  23.08

PubMed score by year
PubTator Score  10.11

PubTator score by year
Amino Acid Sequence
Residue Counts
Protein Sequence
ProtVista Viewer