KDM4B (lysine demethylase 4B)

Gene

• Entrez ID: 23030
• Gene name: Lysine demethylase 4B
• Gene symbol: KDM4B
• Synonyms: JMJD2B, MRD65, TDRD14B
• Chromosome: 19
• Chromosome location: 19p13.3

miRNA

miRTarBase ID	miRNA	Experiments	Reference
MIRT018784	hsa-miR-335-5p	Microarray	18185580
MIRT040426	hsa-miR-615-3p	CLASH	23622248
MIRT038564	hsa-miR-106b-3p	CLASH	23622248
MIRT037961	hsa-miR-505-5p	CLASH	23622248
MIRT1084488	hsa-miR-1178	CLIP-seq
MIRT1084489	hsa-miR-1182	CLIP-seq
MIRT1084490	hsa-miR-1197	CLIP-seq
MIRT1084491	hsa-miR-122	CLIP-seq
MIRT1084492	hsa-miR-1237	CLIP-seq
MIRT1084493	hsa-miR-1253	CLIP-seq
MIRT1084494	hsa-miR-1256	CLIP-seq
MIRT1084495	hsa-miR-1258	CLIP-seq
MIRT1084496	hsa-miR-1267	CLIP-seq
MIRT1084497	hsa-miR-1270	CLIP-seq
MIRT1084498	hsa-miR-138	CLIP-seq
MIRT1084499	hsa-miR-1976	CLIP-seq
MIRT1084500	hsa-miR-199a-3p	CLIP-seq
MIRT1084501	hsa-miR-199b-3p	CLIP-seq
MIRT1084502	hsa-miR-214	CLIP-seq
MIRT1084503	hsa-miR-216a	CLIP-seq
MIRT1084504	hsa-miR-2467-3p	CLIP-seq
MIRT1084505	hsa-miR-2861	CLIP-seq
MIRT1084506	hsa-miR-296-5p	CLIP-seq
MIRT1084507	hsa-miR-299-5p	CLIP-seq
MIRT1084508	hsa-miR-29a	CLIP-seq
MIRT1084509	hsa-miR-29b	CLIP-seq
MIRT1084510	hsa-miR-29c	CLIP-seq
MIRT1084511	hsa-miR-3117-3p	CLIP-seq
MIRT1084512	hsa-miR-3126-5p	CLIP-seq
MIRT1084513	hsa-miR-3129-5p	CLIP-seq
MIRT1084514	hsa-miR-3131	CLIP-seq
MIRT1084515	hsa-miR-3135b	CLIP-seq
MIRT1084516	hsa-miR-3136-3p	CLIP-seq
MIRT1084517	hsa-miR-3157-5p	CLIP-seq
MIRT1084518	hsa-miR-3160-3p	CLIP-seq
MIRT1084519	hsa-miR-3180	CLIP-seq
MIRT1084520	hsa-miR-3180-3p	CLIP-seq
MIRT1084521	hsa-miR-3182	CLIP-seq
MIRT1084522	hsa-miR-3185	CLIP-seq
MIRT1084523	hsa-miR-3196	CLIP-seq
MIRT1084524	hsa-miR-3199	CLIP-seq
MIRT1084525	hsa-miR-3200-5p	CLIP-seq
MIRT1084526	hsa-miR-3617	CLIP-seq
MIRT1084527	hsa-miR-3619-5p	CLIP-seq
MIRT1084528	hsa-miR-3652	CLIP-seq
MIRT1084529	hsa-miR-3678-3p	CLIP-seq
MIRT1084530	hsa-miR-371-5p	CLIP-seq
MIRT1084531	hsa-miR-371b-5p	CLIP-seq
MIRT1084532	hsa-miR-3940-3p	CLIP-seq
MIRT1084533	hsa-miR-4269	CLIP-seq
MIRT1084534	hsa-miR-4281	CLIP-seq
MIRT1084535	hsa-miR-4299	CLIP-seq
MIRT1084536	hsa-miR-4303	CLIP-seq
MIRT1084537	hsa-miR-4419a	CLIP-seq
MIRT1084538	hsa-miR-4423-5p	CLIP-seq
MIRT1084539	hsa-miR-4430	CLIP-seq
MIRT1084540	hsa-miR-4436b-3p	CLIP-seq
MIRT1084541	hsa-miR-4481	CLIP-seq
MIRT1084542	hsa-miR-4487	CLIP-seq
MIRT1084543	hsa-miR-4493	CLIP-seq
MIRT1084544	hsa-miR-4504	CLIP-seq
MIRT1084545	hsa-miR-4510	CLIP-seq
MIRT1084546	hsa-miR-4530	CLIP-seq
MIRT1084547	hsa-miR-4531	CLIP-seq
MIRT1084548	hsa-miR-4532	CLIP-seq
MIRT1084549	hsa-miR-4650-5p	CLIP-seq
MIRT1084550	hsa-miR-4652-5p	CLIP-seq
MIRT1084551	hsa-miR-4655-5p	CLIP-seq
MIRT1084552	hsa-miR-4666-5p	CLIP-seq
MIRT1084553	hsa-miR-4675	CLIP-seq
MIRT1084554	hsa-miR-4690-5p	CLIP-seq
MIRT1084555	hsa-miR-4691-3p	CLIP-seq
MIRT1084556	hsa-miR-4710	CLIP-seq
MIRT1084557	hsa-miR-4722-3p	CLIP-seq
MIRT1084558	hsa-miR-4724-3p	CLIP-seq
MIRT1084559	hsa-miR-4733-3p	CLIP-seq
MIRT1084560	hsa-miR-4741	CLIP-seq
MIRT1084561	hsa-miR-4745-5p	CLIP-seq
MIRT1084562	hsa-miR-4756-3p	CLIP-seq
MIRT1084563	hsa-miR-4761-3p	CLIP-seq
MIRT1084564	hsa-miR-4763-5p	CLIP-seq
MIRT1084565	hsa-miR-4792	CLIP-seq
MIRT1084566	hsa-miR-4797-3p	CLIP-seq
MIRT1084567	hsa-miR-4797-5p	CLIP-seq
MIRT1084568	hsa-miR-4802-3p	CLIP-seq
MIRT1084569	hsa-miR-558	CLIP-seq
MIRT1084570	hsa-miR-611	CLIP-seq
MIRT1084571	hsa-miR-620	CLIP-seq
MIRT1084572	hsa-miR-641	CLIP-seq
MIRT1084573	hsa-miR-661	CLIP-seq
MIRT1084574	hsa-miR-663b	CLIP-seq
MIRT1084575	hsa-miR-720	CLIP-seq
MIRT1084576	hsa-miR-759	CLIP-seq
MIRT1084577	hsa-miR-761	CLIP-seq
MIRT1084578	hsa-miR-889	CLIP-seq
MIRT1084579	hsa-miR-936	CLIP-seq
MIRT1084580	hsa-miR-938	CLIP-seq
MIRT1084489	hsa-miR-1182	CLIP-seq
MIRT2021447	hsa-miR-1184	CLIP-seq
MIRT1084491	hsa-miR-122	CLIP-seq
MIRT2021448	hsa-miR-1224-3p	CLIP-seq
MIRT2021449	hsa-miR-1234	CLIP-seq
MIRT2021450	hsa-miR-1260	CLIP-seq
MIRT2021451	hsa-miR-1260b	CLIP-seq
MIRT1084496	hsa-miR-1267	CLIP-seq
MIRT2021452	hsa-miR-1280	CLIP-seq
MIRT2021453	hsa-miR-1301	CLIP-seq
MIRT2021454	hsa-miR-140-3p	CLIP-seq
MIRT1084507	hsa-miR-299-5p	CLIP-seq
MIRT2021455	hsa-miR-3124-3p	CLIP-seq
MIRT1084515	hsa-miR-3135b	CLIP-seq
MIRT1084518	hsa-miR-3160-3p	CLIP-seq
MIRT2021456	hsa-miR-3194-3p	CLIP-seq
MIRT1084525	hsa-miR-3200-5p	CLIP-seq
MIRT2021457	hsa-miR-361-3p	CLIP-seq
MIRT2021458	hsa-miR-3615	CLIP-seq
MIRT2021459	hsa-miR-3649	CLIP-seq
MIRT1084528	hsa-miR-3652	CLIP-seq
MIRT2021460	hsa-miR-3689d	CLIP-seq
MIRT2021461	hsa-miR-3690	CLIP-seq
MIRT2021462	hsa-miR-378	CLIP-seq
MIRT2021463	hsa-miR-378b	CLIP-seq
MIRT2021464	hsa-miR-378c	CLIP-seq
MIRT2021465	hsa-miR-378d	CLIP-seq
MIRT2021466	hsa-miR-378e	CLIP-seq
MIRT2021467	hsa-miR-378f	CLIP-seq
MIRT2021468	hsa-miR-378h	CLIP-seq
MIRT2021469	hsa-miR-378i	CLIP-seq
MIRT2021470	hsa-miR-3944-5p	CLIP-seq
MIRT2021471	hsa-miR-422a	CLIP-seq
MIRT2021472	hsa-miR-4254	CLIP-seq
MIRT2021473	hsa-miR-4256	CLIP-seq
MIRT2021474	hsa-miR-4282	CLIP-seq
MIRT2021475	hsa-miR-4292	CLIP-seq
MIRT1084536	hsa-miR-4303	CLIP-seq
MIRT2021476	hsa-miR-4308	CLIP-seq
MIRT2021477	hsa-miR-4418	CLIP-seq
MIRT1084538	hsa-miR-4423-5p	CLIP-seq
MIRT1084539	hsa-miR-4430	CLIP-seq
MIRT1084541	hsa-miR-4481	CLIP-seq
MIRT1084542	hsa-miR-4487	CLIP-seq
MIRT1084551	hsa-miR-4655-5p	CLIP-seq
MIRT2021478	hsa-miR-4660	CLIP-seq
MIRT1084553	hsa-miR-4675	CLIP-seq
MIRT2021479	hsa-miR-4714-3p	CLIP-seq
MIRT2021480	hsa-miR-4722-5p	CLIP-seq
MIRT2021481	hsa-miR-4740-3p	CLIP-seq
MIRT1084560	hsa-miR-4741	CLIP-seq
MIRT1084561	hsa-miR-4745-5p	CLIP-seq
MIRT2021482	hsa-miR-4753-3p	CLIP-seq
MIRT2021483	hsa-miR-4757-5p	CLIP-seq
MIRT1084564	hsa-miR-4763-5p	CLIP-seq
MIRT2021484	hsa-miR-4768-3p	CLIP-seq
MIRT1084567	hsa-miR-4797-5p	CLIP-seq
MIRT2021485	hsa-miR-486-3p	CLIP-seq
MIRT2021486	hsa-miR-5047	CLIP-seq
MIRT2021487	hsa-miR-509-3-5p	CLIP-seq
MIRT2021488	hsa-miR-509-5p	CLIP-seq
MIRT2021489	hsa-miR-532-3p	CLIP-seq
MIRT1084569	hsa-miR-558	CLIP-seq
MIRT2021490	hsa-miR-574-5p	CLIP-seq
MIRT2021491	hsa-miR-648	CLIP-seq
MIRT1084573	hsa-miR-661	CLIP-seq
MIRT1084575	hsa-miR-720	CLIP-seq
MIRT1084580	hsa-miR-938	CLIP-seq
MIRT1084489	hsa-miR-1182	CLIP-seq
MIRT1084491	hsa-miR-122	CLIP-seq
MIRT2021448	hsa-miR-1224-3p	CLIP-seq
MIRT2252971	hsa-miR-1228	CLIP-seq
MIRT2021450	hsa-miR-1260	CLIP-seq
MIRT2021451	hsa-miR-1260b	CLIP-seq
MIRT1084496	hsa-miR-1267	CLIP-seq
MIRT2021452	hsa-miR-1280	CLIP-seq
MIRT2021454	hsa-miR-140-3p	CLIP-seq
MIRT2252972	hsa-miR-1539	CLIP-seq
MIRT1084499	hsa-miR-1976	CLIP-seq
MIRT2252973	hsa-miR-3123	CLIP-seq
MIRT1084514	hsa-miR-3131	CLIP-seq
MIRT1084515	hsa-miR-3135b	CLIP-seq
MIRT2252974	hsa-miR-3193	CLIP-seq
MIRT2021456	hsa-miR-3194-3p	CLIP-seq
MIRT1084525	hsa-miR-3200-5p	CLIP-seq
MIRT2252975	hsa-miR-342-5p	CLIP-seq
MIRT2252976	hsa-miR-3646	CLIP-seq
MIRT2021459	hsa-miR-3649	CLIP-seq
MIRT1084528	hsa-miR-3652	CLIP-seq
MIRT2021460	hsa-miR-3689d	CLIP-seq
MIRT2252977	hsa-miR-3919	CLIP-seq
MIRT2021473	hsa-miR-4256	CLIP-seq
MIRT2252978	hsa-miR-4268	CLIP-seq
MIRT2252979	hsa-miR-4330	CLIP-seq
MIRT1084538	hsa-miR-4423-5p	CLIP-seq
MIRT1084539	hsa-miR-4430	CLIP-seq
MIRT2252980	hsa-miR-4435	CLIP-seq
MIRT2252981	hsa-miR-4448	CLIP-seq
MIRT2252982	hsa-miR-4656	CLIP-seq
MIRT2252983	hsa-miR-4664-5p	CLIP-seq
MIRT1084553	hsa-miR-4675	CLIP-seq
MIRT2021481	hsa-miR-4740-3p	CLIP-seq
MIRT1084560	hsa-miR-4741	CLIP-seq
MIRT1084562	hsa-miR-4756-3p	CLIP-seq
MIRT1084567	hsa-miR-4797-5p	CLIP-seq
MIRT2252984	hsa-miR-488	CLIP-seq
MIRT2021489	hsa-miR-532-3p	CLIP-seq
MIRT2252985	hsa-miR-552	CLIP-seq
MIRT1084570	hsa-miR-611	CLIP-seq
MIRT1084575	hsa-miR-720	CLIP-seq
MIRT2252986	hsa-miR-764	CLIP-seq
MIRT2252987	hsa-miR-933	CLIP-seq
MIRT1084580	hsa-miR-938	CLIP-seq
MIRT1084551	hsa-miR-4655-5p	CLIP-seq
MIRT1084553	hsa-miR-4675	CLIP-seq
MIRT1084560	hsa-miR-4741	CLIP-seq
MIRT1084489	hsa-miR-1182	CLIP-seq
MIRT1084491	hsa-miR-122	CLIP-seq
MIRT1084496	hsa-miR-1267	CLIP-seq
MIRT1084515	hsa-miR-3135b	CLIP-seq
MIRT1084528	hsa-miR-3652	CLIP-seq
MIRT1084538	hsa-miR-4423-5p	CLIP-seq
MIRT1084539	hsa-miR-4430	CLIP-seq
MIRT1084575	hsa-miR-720	CLIP-seq
MIRT1084489	hsa-miR-1182	CLIP-seq
MIRT1084496	hsa-miR-1267	CLIP-seq
MIRT1084515	hsa-miR-3135b	CLIP-seq
MIRT1084528	hsa-miR-3652	CLIP-seq
MIRT1084538	hsa-miR-4423-5p	CLIP-seq
MIRT1084539	hsa-miR-4430	CLIP-seq
MIRT1084575	hsa-miR-720	CLIP-seq
MIRT1084489	hsa-miR-1182	CLIP-seq
MIRT1084491	hsa-miR-122	CLIP-seq
MIRT1084496	hsa-miR-1267	CLIP-seq
MIRT1084515	hsa-miR-3135b	CLIP-seq
MIRT1084528	hsa-miR-3652	CLIP-seq
MIRT1084538	hsa-miR-4423-5p	CLIP-seq
MIRT1084539	hsa-miR-4430	CLIP-seq
MIRT1084575	hsa-miR-720	CLIP-seq
MIRT1084489	hsa-miR-1182	CLIP-seq
MIRT1084491	hsa-miR-122	CLIP-seq
MIRT1084496	hsa-miR-1267	CLIP-seq
MIRT1084515	hsa-miR-3135b	CLIP-seq
MIRT1084528	hsa-miR-3652	CLIP-seq
MIRT1084538	hsa-miR-4423-5p	CLIP-seq
MIRT1084539	hsa-miR-4430	CLIP-seq
MIRT1084575	hsa-miR-720	CLIP-seq

Gene ontology (GO)

GO ID	Ontology	Definition	Evidence	Reference
GO:0005634	Component	Nucleus	IBA	21873635
GO:0005654	Component	Nucleoplasm	TAS
GO:0006338	Process	Chromatin remodeling	IBA	21873635
GO:0032452	Function	Histone demethylase activity	IBA	21873635
GO:0032454	Function	Histone demethylase activity (H3-K9 specific)	IBA	21873635
GO:0032454	Function	Histone demethylase activity (H3-K9 specific)	IDA	21914792
GO:0032454	Function	Histone demethylase activity (H3-K9 specific)	IMP	28262558
GO:0032454	Function	Histone demethylase activity (H3-K9 specific)	TAS
GO:0033169	Process	Histone H3-K9 demethylation	IDA	21914792
GO:0033169	Process	Histone H3-K9 demethylation	IMP	28262558
GO:0046872	Function	Metal ion binding	IEA
GO:0051864	Function	Histone demethylase activity (H3-K36 specific)	IDA	21914792
GO:0070544	Process	Histone H3-K36 demethylation	IDA	21914792

Other IDs

• MIM: 609765
• HGNC: 29136
• e!Ensembl: ENSG00000127663

Protein

• UniProt ID: O94953
• Protein name: Lysine-specific demethylase 4B (EC 1.14.11.66) (JmjC domain-containing histone demethylation protein 3B) (Jumonji domain-containing protein 2B) ([histone H3]-trimethyl-L-lysine(9) demethylase 4B)
• Protein function: Histone demethylase that specifically demethylates 'Lys-9' of histone H3, thereby playing a role in histone code. Does not demethylate histone H3 'Lys-4', H3 'Lys-27', H3 'Lys-36' nor H4 'Lys-20'. Only able to demethylate trimethylated H3 'Lys-9
• PDB: 4LXL, 4UC4, 7JM5, 9H44
• Family and domains:

  Pfam

  Accession	ID	Position in sequence	Description	Type
  PF02375	JmjN	16 → 50	jmjN domain	Family
  PF02373	JmjC	176 → 292	JmjC domain, hydroxylase	Domain
  PF13831	PHD_2	754 → 789		Family
  PF13832	zf-HC5HC2H_2	795 → 906		Domain
  PF18104	Tudor_2	922 → 956	Jumonji domain-containing protein 2A Tudor domain	Domain
  PF18104	Tudor_2	980 → 1014	Jumonji domain-containing protein 2A Tudor domain	Domain

• Sequence:

  MGSEDHGAQNPSCKIMTFRPTMEEFKDFNKYVAYIESQGAHRAGLAKIIPPKEWKPRQTY
  DDIDDVVIPAPIQQVVTGQSGLFTQYNIQKKAMTVGEYRRLANSEKYCTPRHQDFDDLER
  KYWKNLTFVSPIYGADISGSLYDDDVAQWNIGSLRTILDMVERECGTIIEGVNTPYLYFG
  MWKTTFAWHTEDMDLYSINYLHFGEPKSWYAIPPEHGKRLERLAIGFFPGSSQGCDAFLR
  HKMTLISPIILKKYGIPFSRITQEAGEFMITFPYGYHAGFNHGFNCAESTNFATLRWIDY
  GKVATQCTCRKDMVKISMDVFVRILQPERYELWKQGKDLTVLDHTRPTALTSPELSSWSA
  SRASLKAKLLRRSHRKRSQPKKPKPEDPKFPGEGTAGAALLEEAGGSVKEEAGPEVDPEE
  EEEEPQPLPHGREAEGAEEDGRGKLRPTKAKSERKKKSFGLLPPQLPPPPAHFPSEEALW
  LPSPLEPPVLGPGPAAMEESPLPAPLNVVPPEVPSEELEAKPRPIIPMLYVVPRPGKAAF
  NQEHVSCQQAFEHFAQKGPTWKEPVSPMELTGPEDGAASSGAGRMETKARAGEGQAPSTF
  SKLKMEIKKSRRHPLGRPPTRSPLSVVKQEASSDEEASPFSGEEDVSDPDALRPLLSLQW
  KNRAASFQAERKFNAAAARTEPYCAICTLFYPYCQALQTEKEAPIASLGKGCPATLPSKS
  RQKTRPLIPEMCFTSGGENTEPLPANSYIGDDGTSPLIACGKCCLQVHASCYGIRPELVN
  EGWTCSRCAAHAWTAECCLCNLRGGALQMTTDRRWIHVICAIAVPEARFLNVIERHPVDI
  SAIPEQRWKLKCVYCRKRMKKVSGACIQCSYEHCSTSFHVTCAHAAGVLMEPDDWPYVVS
  ITCLKHKSGGHAVQLLRAVSLGQVVITKNRNGLYYRCRVIGAASQTCYEVNFDDGSYSDN
  LYPESITSRDCVQLGPPSEGELVELRWTDGNLYKAKFISSVTSHIYQVEFEDGSQLTVKR
  GDIFTLEEELPKRVRSRLSLSTGAPQEPAFSGEEAKAAKRPRVGTPLATEDSGRSQDYVA
  FVESLLQVQGRPGAPF

• Sequence length: 1096

Pathways

Reactome:

HDMs demethylate histones
Recruitment and ATM-mediated phosphorylation of repair and signaling proteins at DNA double strand breaks
Estrogen-dependent gene expression

Associated diseases

Causal
Disease name	Disease term	dbSNP ID	References
Medulloblastoma	Medulloblastoma, Childhood Medulloblastoma, Adult Medulloblastoma, Desmoplastic Medulloblastoma, Melanotic medulloblastoma	rs1589970134, rs587776578, rs587776579, rs17847577, rs111033171, rs80359604, rs80358785, rs80358814, rs863224925, rs1555950011, rs1554231278, rs926177767, rs759412460, rs1564032829, rs761911009	19270706
Melanoma	melanoma	rs121913315, rs121913323, rs137853080, rs137853081, rs121909232, rs121913388, rs104894094, rs1563902635, rs104894095, rs104894097, rs104894098, rs104894099, rs104894109, rs137854599, rs11547328, rs104894340, rs398123152, rs587780668, rs587782083, rs587782206, rs587782792, rs180177042, rs121913381, rs730881675, rs730881674, rs730881677, rs730881673, rs1800586, rs768966657, rs587778189, rs786204195, rs121913321, rs45476696, rs864622636, rs864622263, rs869025340, rs876660436, rs876658534, rs876658556, rs878853647, rs878853644, rs878853650, rs886041162, rs121913389, rs1057519852, rs121913384, rs121913387, rs1060501266, rs1060501263, rs1060501262, rs749714198, rs1060501265, rs559848002, rs1064794292, rs1131691187, rs1131691186, rs199907548, rs1554654052, rs1554656411, rs1554656624, rs1554653915, rs1554653956, rs1554656253, rs1554654224, rs754806883, rs1057520039, rs1563889584, rs1563889685, rs1287464120, rs1563888944, rs1563892715, rs1563889847, rs141798398, rs1587332338, rs1587340291, rs11552823, rs561034503, rs138677674, rs1819962958, rs1820531050	29438700

Unknown
Disease name	Disease term	dbSNP ID	References
Lupus erythematosus	Lupus Erythematosus, Systemic		28714469
Medullomyoblastoma	Medullomyoblastoma		19270706