CPLM 1.0 - Compendium of Protein Lysine Modification
TagContent
CPLM ID CPLM-023824
UniProt Accession
Genbank Protein ID
Genbank Nucleotide ID
Protein Name
 Lysine-specific demethylase 3A 
Protein Synonyms/Alias
 JmjC domain-containing histone demethylation protein 2A; Jumonji domain-containing protein 1A 
Gene Name
 KDM3A 
Gene Synonyms/Alias
 JHDM2A; JMJD1; JMJD1A; KIAA0742; TSGA 
Created Date
 July 27, 2013 
Organism
 Homo sapiens (Human) 
NCBI Taxa ID
 9606 
Lysine Modification
Position
Peptide
Type
References
117QWPAITYKPLLDKAGubiquitination[1]
144QQRVFLSKDLLKPIQubiquitination[1]
168TDNQIVSKEFQALIVubiquitination[1]
691CVDCYRMKRKNCQQGubiquitination[2]
748VRAKWGIKANCPCSNubiquitination[1]
851PILKNEIKCLPPLPPubiquitination[1, 3]
895LLNSSTGKTENGLKNacetylation[4]
895LLNSSTGKTENGLKNubiquitination[1, 2]
905NGLKNTPKILDDIFAubiquitination[1, 3]
918FASLVQNKTTSDLSKubiquitination[1, 2, 5]
960CLQDPNNKSNWNVFRubiquitination[1]
997WKPESFRKEFGEQEVubiquitination[1]
1080EYTRRDGKLNLASRLubiquitination[1]
1161DSDELTIKRFIEGKEubiquitination[1, 2, 5]
1169RFIEGKEKPGALWHIubiquitination[1]
1271FVSPEHVKHCFWLTQubiquitination[1]
1320ASESSFGKP******ubiquitination[1]
Reference
 [1] Refined preparation and use of anti-diglycine remnant (K-ε-GG) antibody enables routine quantification of 10,000s of ubiquitination sites in single proteomics experiments.
 Udeshi ND, Svinkina T, Mertins P, Kuhn E, Mani DR, Qiao JW, Carr SA.
 Mol Cell Proteomics. 2013 Mar;12(3):825-31. [PMID: 23266961]
 [2] Systematic and quantitative assessment of the ubiquitin-modified proteome.
 Kim W, Bennett EJ, Huttlin EL, Guo A, Li J, Possemato A, Sowa ME, Rad R, Rush J, Comb MJ, Harper JW, Gygi SP.
 Mol Cell. 2011 Oct 21;44(2):325-40. [PMID: 21906983]
 [3] A proteome-wide, quantitative survey of in vivo ubiquitylation sites reveals widespread regulatory roles.
 Wagner SA, Beli P, Weinert BT, Nielsen ML, Cox J, Mann M, Choudhary C.
 Mol Cell Proteomics. 2011 Oct;10(10):M111.013284. [PMID: 21890473]
 [4] Lysine acetylation targets protein complexes and co-regulates major cellular functions.
 Choudhary C, Kumar C, Gnad F, Nielsen ML, Rehman M, Walther TC, Olsen JV, Mann M.
 Science. 2009 Aug 14;325(5942):834-40. [PMID: 19608861]
 [5] Landscape of the PARKIN-dependent ubiquitylome in response to mitochondrial depolarization.
 Sarraf SA, Raman M, Guarani-Pereira V, Sowa ME, Huttlin EL, Gygi SP, Harper JW.
 Nature. 2013 Apr 18;496(7445):372-6. [PMID: 23503661] 
Functional Description
 Histone demethylase that specifically demethylates 'Lys- 9' of histone H3, thereby playing a central role in histone code. Preferentially demethylates mono- and dimethylated H3 'Lys-9' residue, with a preference for dimethylated residue, while it has weak or no activity on trimethylated H3 'Lys-9'. Demethylation of Lys residue generates formaldehyde and succinate. Involved in hormone-dependent transcriptional activation, by participating in recruitment to androgen-receptor target genes, resulting in H3 'Lys-9' demethylation and transcriptional activation. Involved in spermatogenesis by regulating expression of target genes such as PRM1 and TMP1 which are required for packaging and condensation of sperm chromatin. Involved in obesity resistance through regulation of metabolic genes such as PPARA and UCP1. 
Sequence Annotation
 DOMAIN 1058 1281 JmjC.
 ZN_FING 662 687 C6-type (Potential).
 MOTIF 885 889 LXXLL motif.
 METAL 1120 1120 Iron; catalytic (Probable).
 METAL 1122 1122 Iron; catalytic (By similarity).
 METAL 1249 1249 Iron; catalytic (By similarity).
 MOD_RES 264 264 Phosphoserine.
 MOD_RES 445 445 Phosphoserine.
 MOD_RES 895 895 N6-acetyllysine.  
Keyword
 Acetylation; Activator; Chromatin regulator; Complete proteome; Cytoplasm; Differentiation; Dioxygenase; Iron; Metal-binding; Nucleus; Oxidoreductase; Phosphoprotein; Polymorphism; Reference proteome; Spermatogenesis; Transcription; Transcription regulation; Zinc; Zinc-finger. 
Sequence Source
 UniProt (SWISSPROT/TrEMBL); GenBank; EMBL 
Protein Length
 1321 AA 
Protein Sequence
MVLTLGESWP VLVGRRFLSL SAADGSDGSH DSWDVERVAE WPWLSGTIRA VSHTDVTKKD 60
LKVCVEFDGE SWRKRRWIEV YSLLRRAFLV EHNLVLAERK SPEISERIVQ WPAITYKPLL 120
DKAGLGSITS VRFLGDQQRV FLSKDLLKPI QDVNSLRLSL TDNQIVSKEF QALIVKHLDE 180
SHLLKGDKNL VGSEVKIYSL DPSTQWFSAT VINGNPASKT LQVNCEEIPA LKIVDPSLIH 240
VEVVHDNLVT CGNSARIGAV KRKSSENNGT LVSKQAKSCS EASPSMCPVQ SVPTTVFKEI 300
LLGCTAATPP SKDPRQQSTP QAANSPPNLG AKIPQGCHKQ SLPEEISSCL NTKSEALRTK 360
PDVCKAGLLS KSSQIGTGDL KILTEPKGSC TQPKTNTDQE NRLESVPQAL TGLPKECLPT 420
KASSKAELEI ANPPELQKHL EHAPSPSDVS NAPEVKAGVN SDSPNNCSGK KVEPSALACR 480
SQNLKESSVK VDNESCCSRS NNKIQNAPSR KSVLTDPAKL KKLQQSGEAF VQDDSCVNIV 540
AQLPKCRECR LDSLRKDKEQ QKDSPVFCRF FHFRRLQFNK HGVLRVEGFL TPNKYDNEAI 600
GLWLPLTKNV VGIDLDTAKY ILANIGDHFC QMVISEKEAM STIEPHRQVA WKRAVKGVRE 660
MCDVCDTTIF NLHWVCPRCG FGVCVDCYRM KRKNCQQGAA YKTFSWLKCV KSQIHEPENL 720
MPTQIIPGKA LYDVGDIVHS VRAKWGIKAN CPCSNRQFKL FSKPASKEDL KQTSLAGEKP 780
TLGAVLQQNP SVLEPAAVGG EAASKPAGSM KPACPASTSP LNWLADLTSG NVNKENKEKQ 840
PTMPILKNEI KCLPPLPPLS KSSTVLHTFN STILTPVSNN NSGFLRNLLN SSTGKTENGL 900
KNTPKILDDI FASLVQNKTT SDLSKRPQGL TIKPSILGFD TPHYWLCDNR LLCLQDPNNK 960
SNWNVFRECW KQGQPVMVSG VHHKLNSELW KPESFRKEFG EQEVDLVNCR TNEIITGATV 1020
GDFWDGFEDV PNRLKNEKEP MVLKLKDWPP GEDFRDMMPS RFDDLMANIP LPEYTRRDGK 1080
LNLASRLPNY FVRPDLGPKM YNAYGLITPE DRKYGTTNLH LDVSDAANVM VYVGIPKGQC 1140
EQEEEVLKTI QDGDSDELTI KRFIEGKEKP GALWHIYAAK DTEKIREFLK KVSEEQGQEN 1200
PADHDPIHDQ SWYLDRSLRK RLHQEYGVQG WAIVQFLGDV VFIPAGAPHQ VHNLYSCIKV 1260
AEDFVSPEHV KHCFWLTQEF RYLSQTHTNH EDKLQVKNVI YHAVKDAVAM LKASESSFGK 1320
P 1321 
Gene Ontology
 GO:0005737; C:cytoplasm; IEA:UniProtKB-SubCell.
 GO:0005634; C:nucleus; IDA:UniProtKB.
 GO:0050681; F:androgen receptor binding; IDA:UniProtKB.
 GO:0001047; F:core promoter binding; IEA:Compara.
 GO:0005506; F:iron ion binding; IMP:UniProtKB.
 GO:0016702; F:oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen; IEA:UniProtKB-KW.
 GO:0003700; F:sequence-specific DNA binding transcription factor activity; IEA:Compara.
 GO:0000976; F:transcription regulatory region sequence-specific DNA binding; IEA:Compara.
 GO:0030521; P:androgen receptor signaling pathway; IDA:UniProtKB.
 GO:0046293; P:formaldehyde biosynthetic process; IDA:UniProtKB.
 GO:0033169; P:histone H3-K9 demethylation; IDA:UniProtKB.
 GO:0036123; P:histone H3-K9 dimethylation; IEA:Compara.
 GO:0009755; P:hormone-mediated signaling pathway; IDA:UniProtKB.
 GO:0051573; P:negative regulation of histone H3-K9 methylation; IEA:Compara.
 GO:0045944; P:positive regulation of transcription from RNA polymerase II promoter; IEA:Compara.
 GO:0045893; P:positive regulation of transcription, DNA-dependent; IMP:UniProtKB.
 GO:0007290; P:spermatid nucleus elongation; IEA:Compara.
 GO:0006351; P:transcription, DNA-dependent; IEA:UniProtKB-KW. 
Interpro
 IPR003347; JmjC_dom. 
Pfam
 PF02373; JmjC 
SMART
 SM00558; JmjC 
PROSITE
 PS51184; JMJC 
PRINTS