KDM2A

Details:

UniProt Entry: Q9Y2K7
Gene: KDM2A
Class: RING
Family: RING7
Protein length: 1162
Database confidence: 0.375
InterPro: InterPro Entry
Mode of Action: Complex
AlphaFold Model: Link
PDB Structures: 2yu1, 2yu2, 4bbq, 6byh, 6c16, 7uv9

Protein Sequence ▾

>Q9Y2K7
MEPEEERIRY SQRLRGTMRR RYEDDGISDD EIEGKRTFDL EEKLHTNKYN ANFVTFMEGK
DFNVEYIQRG GLRDPLIFKN SDGLGIKMPD PDFTVNDVKM CVGSRRMVDV MDVNTQKGIE
MTMAQWTRYY ETPEEEREKL YNVISLEFSH TRLENMVQRP STVDFIDWVD NMWPRHLKES
QTESTNAILE MQYPKVQKYC LMSVRGCYTD FHVDFGGTSV WYHIHQGGKV FWLIPPTAHN
LELYENWLLS GKQGDIFLGD RVSDCQRIEL KQGYTFVIPS GWIHAVYTPT DTLVFGGNFL
HSFNIPMQLK IYNIEDRTRV PNKFRYPFYY EMCWYVLERY VYCITNRSHL TKEFQKESLS
MDLELNGLES GNGDEEAVDR EPRRLSSRRS VLTSPVANGV NLDYDGLGKT CRSLPSLKKT
LAGDSSSDCS RGSHNGQVWD PQCAPRKDRQ VHLTHFELEG LRCLVDKLES LPLHKKCVPT
GIEDEDALIA DVKILLEELA NSDPKLALTG VPIVQWPKRD KLKFPTRPKV RVPTIPITKP
HTMKPAPRLT PVRPAAASPI VSGARRRRVR CRKCKACVQG ECGVCHYCRD MKKFGGPGRM
KQSCVLRQCL APRLPHSVTC SLCGEVDQNE ETQDFEKKLM ECCICNEIVH PGCLQMDGEG
LLNEELPNCW ECPKCYQEDS SEKAQKRKME ESDEEAVQAK VLRPLRSCDE PLTPPPHSPT
SMLQLIHDPV SPRGMVTRSS PGAGPSDHHS ASRDERFKRR QLLRLQATER TMVREKENNP
SGKKELSEVE KAKIRGSYLT VTLQRPTKEL HGTSIVPKLQ AITASSANLR HSPRVLVQHC
PARTPQRGDE EGLGGEEEEE EEEEEEDDSA EEGGAARLNG RGSWAQDGDE SWMQREVWMS
VFRYLSRREL CECMRVCKTW YKWCCDKRLW TKIDLSRCKA IVPQALSGII KRQPVSLDLS
WTNISKKQLT WLVNRLPGLK DLLLAGCSWS AVSALSTSSC PLLRTLDLRW AVGIKDPQIR
DLLTPPADKP GQDNRSKLRN MTDFRLAGLD ITDATLRLII RHMPLLSRLD LSHCSHLTDQ
SSNLLTAVGS STRYSLTELN MAGCNKLTDQ TLIYLRRIAN VTLIDLRGCK QITRKACEHF
ISDLSINSLY CLSDEKLIQK IS

Domain Architecture (From InterPro) ▾

Start	End	Type	Name	InterPro	Source
148	316	Domain	JmjC domain	IPR003347	SM00558
148	316	Domain	JmjC domain	IPR003347	PS51184
304	341	Domain	Jumonji, helical domain	IPR041070	PF17811
564	610	Domain	Zinc finger, CXXC-type	IPR002857	PS51058
565	609	Domain	Zinc finger, CXXC-type	IPR002857	PF02008
606	681	Homologous_superfamily	Zinc finger, RING/FYVE/PHD-type	IPR013083	G3DSA:3.30.40.10
613	679	Homologous_superfamily	Zinc finger, FYVE/PHD-type	IPR011011	SSF57903
614	676	Domain	Zinc finger, PHD-finger	IPR019787	PF16866
617	678	Domain	Zinc finger, PHD-finger	IPR019787	PS50016
619	676	Domain	Zinc finger, PHD-type	IPR001965	SM00249
620	675	Conserved_site	Zinc finger, PHD-type, conserved site	IPR019786	PS01359
891	1161	Homologous_superfamily	Leucine-rich repeat domain superfamily	IPR032675	G3DSA:3.80.10.10
896	932	Domain	F-box domain	IPR001810	PF00646
1000	1025	Repeat	Leucine-rich repeat, cysteine-containing subtype	IPR006553	SM00367
1063	1091	Repeat	Leucine-rich repeat, cysteine-containing subtype	IPR006553	SM00367
1095	1118	Repeat	Leucine-rich repeat, cysteine-containing subtype	IPR006553	SM00367

Protein functions ▾

GO term	Name	Ontology	Evidence	Reference
GO:0006325	chromatin organization	Biological Process	IEA	GO_REF:0000043
GO:0006338	chromatin remodeling	Biological Process	IEA	GO_REF:0000108
GO:0032259	methylation	Biological Process	IEA	GO_REF:0000043
GO:0006303	double-strand break repair via nonhomologous end joining	Biological Process	IMP	PMID:21187428
GO:0006357	regulation of transcription by RNA polymerase II	Biological Process	IBA	GO_REF:0000033
GO:0010944	negative regulation of transcription by competitive promoter binding	Biological Process	IMP	PMID:26037310
GO:0032922	circadian regulation of gene expression	Biological Process	IMP	PMID:26037310
GO:0042752	regulation of circadian rhythm	Biological Process	IMP	PMID:26037310
GO:0048511	rhythmic process	Biological Process	IEA	GO_REF:0000043
GO:0005634	nucleus	Cellular Component	IEA	GO_REF:0000120
GO:0005654	nucleoplasm	Cellular Component	IDA	GO_REF:0000052
GO:0005694	chromosome	Cellular Component	IEA	GO_REF:0000120
GO:0003677	DNA binding	Molecular Function	IEA	GO_REF:0000120
GO:0008168	methyltransferase activity	Molecular Function	IEA	GO_REF:0000043
GO:0008270	zinc ion binding	Molecular Function	IEA	GO_REF:0000120
GO:0016491	oxidoreductase activity	Molecular Function	IEA	GO_REF:0000043
GO:0045322	unmethylated CpG binding	Molecular Function	IEA	GO_REF:0000117
GO:0046872	metal ion binding	Molecular Function	IEA	GO_REF:0000043
GO:0051213	dioxygenase activity	Molecular Function	IEA	GO_REF:0000043
GO:0051864	histone H3K36 demethylase activity	Molecular Function	IEA	GO_REF:0000117
GO:0003712	transcription coregulator activity	Molecular Function	IBA	GO_REF:0000033
GO:0005515	protein binding	Molecular Function	IPI	PMID:15070733
GO:0032452	histone demethylase activity	Molecular Function	IBA	GO_REF:0000033
GO:0140680	histone H3K36me/H3K36me2 demethylase activity	Molecular Function	IEA	GO_REF:0000120

Enzyme–Substrate Interactions ▾


Q16875	F263	Yes	No	No	No	—	No	E3-specific

Small Molecule Interactions ▾

Type	ChEMBL Compound ID	Source	pChEMBL	PDB Compound ID	PDB Codes	SMILES
E3 Binder	CHEMBL222824	ChEMBL	6.24	SHU	—	CC(=O)CC(=O)CCC(=O)O
E3 Binder	CHEMBL3785340	ChEMBL	6.55	—	—	CCCCCC[n+]1ccc(/C=C/c2ccc(N(C)C)cc2)cc1.[I-]
E3 Binder	CHEMBL600353	ChEMBL	6.55	—	—	CCCCCC[n+]1ccccc1C=Cc1ccc(N(C)C)cc1.[I-]
E3 Binder	CHEMBL4288093	ChEMBL	7.0	—	—	CCOc1cc(-c2c(-c3cc(-c4c[nH]nn4)ccn3)ncn2C)ccc1F
E3 Binder	CHEMBL1229308	ChEMBL	6.7	—	—	CN(C)CCCCCCCCC(=O)N(O)CCC(=O)O
E3 Binder	CHEMBL3786265	ChEMBL	6.55	—	—	CN(C)c1ccc(/C=C/c2cc[n+](Cc3ccc(F)cc3)cc2)cc1.[I-]
E3 Binder	CHEMBL2164245	ChEMBL	6.43	—	—	CNNC(=O)CCC(=O)O
E3 Binder	CHEMBL3786952	ChEMBL	6.09	6EP	—	Cc1cc(Cl)ccc1COc1ccnn1-c1cc(C(=O)O)ccn1
E3 Binder	CHEMBL3786188	ChEMBL	6.55	—	—	Cc1ccc(N2N=C(C(=O)c3ccccc3)SC23SCC(=O)N3c2ccccc2)cc1
E3 Binder	CHEMBL4283409	ChEMBL	7.0	—	—	Clc1cccc(-n2cnc(-c3cc4[nH]nnc4cn3)c2)c1
E3 Binder	CHEMBL4294926	ChEMBL	7.0	—	—	Clc1ccccc1Cn1cnc(-c2cc(-c3c[nH]nn3)ccn2)c1
E3 Binder	CHEMBL2392184	ChEMBL	8.09	—	—	NCc1ccc(CN(CCCCN(O)C(=O)/C=C/C(=O)[O-])C(=S)Nc2ccc(-c3c4ccc(=O)cc-4oc4cc(O)ccc34)c(C(=O)[O-])c2)cc1.[Na+].[Na+]
E3 Binder	CHEMBL2392185	ChEMBL	6.38	—	—	NCc1ccc(CNCCCCN(O)C(=O)/C=C/C(=O)O)cc1
E3 Binder	CHEMBL2164246	ChEMBL	6.6	88B	—	NNC(=O)CCC(=O)O
E3 Binder	CHEMBL3108958	ChEMBL	6.66	—	—	N[C@@H]1C[C@H]1c1ccc(NC(=O)c2ccnc(-c3cc(C(=O)O)ccn3)c2)cc1.O=C(O)C(F)(F)F
E3 Binder	CHEMBL5173876	ChEMBL	7.2	6MK	—	O=C(O)/C=C/C(=O)NNC(=O)c1cnccc1Cc1ccccc1
E3 Binder	CHEMBL51979	ChEMBL	6.37	—	—	O=C(O)CCC(=O)NO
E3 Binder	CHEMBL1230640	ChEMBL	6.7	8XQ	—	O=C(O)c1ccc(O)c2ncccc12
E3 Binder	CHEMBL3621880	ChEMBL	6.2	—	—	O=C(O)c1ccnc(-c2cn(C3CCCN(C(=O)CCc4ccccc4)C3)nn2)c1
E3 Binder	CHEMBL3621878	ChEMBL	6.9	—	—	O=C(O)c1ccnc(-c2cn(C3CCCN(C(=O)c4ccccc4)C3)nn2)c1
E3 Binder	CHEMBL3621873	ChEMBL	6.0	—	—	O=C(O)c1ccnc(-c2cn(C3CCN(C(=O)Cc4ccccc4)C3)nn2)c1
E3 Binder	CHEMBL3621872	ChEMBL	6.4	—	—	O=C(O)c1ccnc(-c2cn(C3CCN(C(=O)c4ccccc4)C3)nn2)c1
E3 Binder	CHEMBL3621881	ChEMBL	7.2	—	—	O=C(O)c1ccnc(-c2cn([C@@H]3CCCN(C(=O)c4ccccc4)C3)nn2)c1

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