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Tbio
KDM1B
Lysine-specific histone demethylase 1B

Protein Summary
Description
Histone demethylase that demethylates 'Lys-4' of histone H3, a specific tag for epigenetic transcriptional activation, thereby acting as a corepressor. Required for de novo DNA methylation of a subset of imprinted genes during oogenesis. Acts by oxidizing the substrate by FAD to generate the corresponding imine that is subsequently hydrolyzed. Demethylates both mono- and di-methylated 'Lys-4' of histone H3. Has no effect on tri-methylated 'Lys-4', mono-, di- or tri-methylated 'Lys-9', mono-, di- or tri-methylated 'Lys-27', mono-, di- or tri-methylated 'Lys-36' of histone H3, or on mono-, di- or tri-methylated 'Lys-20' of histone H4. Flavin-dependent histone demethylases, such as KDM1B, regulate histone lysine methylation, an epigenetic mark that regulates gene expression and chromatin function (Karytinos et al., 2009 [PubMed 19407342]).[supplied by OMIM, Oct 2009]
Uniprot Accession IDs
Gene Name
Ensembl ID
  • ENST00000297792
  • ENSP00000297792
  • ENSG00000165097

Symbol
  • AOF1
  • C6orf193
  • LSD2
  • AOF1
  • LSD2
  • C6orf193
Illumination Graph
Knowledge Table
Most Knowledge About
Knowledge Value (0 to 1 scale)
molecular function
0.84
histone modification site profile
0.75
protein domain
0.73
transcription factor
0.7
biological process
0.66


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: 46.82   (req: < 5)
Gene RIFs: 8   (req: <= 3)
Antibodies: 145   (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: 46.82   (req: >= 5)
Gene RIFs: 8   (req: > 3)
Antibodies: 145   (req: > 50)

- OR - satisfy the following criterion:

Gene Ontology Terms: 14
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
Protein Sequence and Structure
Residue Counts
Protein Sequence
ProtVista Viewer
Expression Data (0 Tissues)
No expression data found
Related Tools
Target Illumination GWAS Analytics (TIGA)
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TIGA scores and ranks GWAS discovered associations according to the quantity and quality of the evidence supporting the association.
GENEVA
Thumbnail image for 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
Thumbnail image for GlyGen
GlyGen is a data integration and dissemination project for carbohydrate and glycoconjugate related data.
ARCHS4
Thumbnail image for ARCHS4
ARCHS4 provides access to gene-function predictions based on RNA-seq co-expression, and gene expression levels across cell and tissues.
Approved Drugs (0)
No approved drugs found
Active Ligands (0)
No active ligands found
Protein-Protein Interactions (124)
ASXL2
Tbio
Family:  Epigenetic
Novelty:  0.04277784
p_int:  0.999999969
p_ni:  2.9e-8
p_wrong:  1e-9
Score:  0.952
Data Source:  BioPlex,STRINGDB
BAP1
Tbio
Family:  Enzyme
Novelty:  0.00501435
p_int:  0.999999907
p_ni:  9.3e-8
Score:  0.956
Data Source:  BioPlex,STRINGDB
GLYR1
Tbio
Family:  Epigenetic
Novelty:  0.036121
p_int:  0.999998651
p_ni:  0.000001349
Score:  0.566
Data Source:  BioPlex,STRINGDB
ANKRD9
Tdark
Novelty:  0.43181793
p_int:  0.999912244
p_ni:  0.000087755
p_wrong:  1e-9
Data Source:  BioPlex
SPATA17
Tbio
Novelty:  0.18178869
p_int:  0.99984891
p_ni:  0.000150827
p_wrong:  2.63e-7
Score:  0.52
Data Source:  BioPlex,STRINGDB
NDUFA10
Tclin
Family:  Enzyme
Novelty:  0.06260343
p_int:  0.999754145
p_ni:  0.000245852
p_wrong:  3e-9
Data Source:  BioPlex
HAVCR2
Tbio
Novelty:  0.00155885
p_int:  0.999460365
p_ni:  0.000525728
p_wrong:  0.000013907
Data Source:  BioPlex
C8B
Tbio
Novelty:  0.00873524
p_int:  0.998865688
p_ni:  0.001134289
p_wrong:  2.4e-8
Data Source:  BioPlex
FAM19A3
Tdark
Novelty:  0.37183557
p_int:  0.998830697
p_ni:  0.001164599
p_wrong:  0.000004703
Data Source:  BioPlex
SH2D2A
Tbio
Novelty:  0.02356634
p_int:  0.998638465
p_ni:  0.001358001
p_wrong:  0.000003534
Score:  0.519
Data Source:  BioPlex,STRINGDB
Nearest Tclin Targets
Nearest Tclin calculations are only available for targets with KEGG Pathway annotations.
Pathways (7)
Chromatin modifying enzymes (R-HSA-3247509)

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

Find Similar Targets
Items per page:
1 – 5 of 7
Data Source
Name
Explore in Pharos
Explore in Source
Reactome
Chromatin modifying enzymes
Reactome
Chromatin organization
Reactome
Deubiquitination
Reactome
HDMs demethylate histones
Reactome
Metabolism of proteins
Name
Explore in Pharos
Explore in Source
Chromatin modifying enzymes
Chromatin organization
Deubiquitination
HDMs demethylate histones
Metabolism of proteins
Viral Interactions (0)
No viral interactions found
Gene Ontology Terms (17)
Find Similar Targets
Items per page:
10
1 – 8 of 8
GO Term
Evidence
Assigned by
Inferred from Direct Assay (IDA)
UniProtKB
Inferred from Direct Assay (IDA)
UniProtKB
Inferred from Direct Assay (IDA)
UniProtKB
Inferred from Direct Assay (IDA)
UniProtKB
Inferred from Direct Assay (IDA)
UniProtKB
Inferred from Biological aspect of Ancestor (IBA)
GO_Central
Traceable Author Statement (TAS)
Reactome
Inferred from Electronic Annotation (IEA)
InterPro
Disease Associations ()
No disease associations found
GWAS Traits (7)
GWAS Trait
EFO ID
Study Count
SNP Count
Beta Count
Odds Ratio
Evidence (Mean Rank Score)
Provenance
response to mercaptopurine
1
1
0
7.7
85.5
thiopurine methyltransferase activity measurement
1
1
0
7.7
85.5
2
1
0
1.1
77
1
1
0
5.6
21.5
age at onset
1
1
0
5.6
21.5
GWAS Trait
EFO ID
Beta Count
Odds Ratio
Evidence (Mean Rank Score)
Provenance
response to mercaptopurine
0
7.7
85.5
thiopurine methyltransferase activity measurement
0
7.7
85.5
0
1.1
77
0
5.6
21.5
age at onset
0
5.6
21.5
Find similar targets by:
IDG Resources
No IDG generated resources found
Orthologs (14)
1 – 5 of 14
Species
Name
Source ID
Gene ID
OMA
EggNOG
Inparanoid
Chimp
lysine demethylase 1B
VGNC:7900
462459
Macaque
lysine demethylase 1B
704663
Mouse
MGI:2145261
218214
Rat
RGD:1310701
306819
Dog
lysine demethylase 1B
VGNC:42319
478733
Species
Name
OMA
EggNOG
Inparanoid
Chimp
lysine demethylase 1B
Macaque
lysine demethylase 1B
Mouse
Rat
Dog
lysine demethylase 1B
Publication Statistics
PubMed Score 46.82
PubMed score by year
PubTator Score 23.61
PubTator score by year
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Related Publications
Items per page:
0 of 0
PMID
Year
Title