KEGG   ENZYME: 1.14.11.65Help
Entry
EC 1.14.11.65               Enzyme                                 

Name
[histone H3]-dimethyl-L-lysine9 demethylase;
KDM3A (gene name);
KDM3B (gene name);
JMJD1A (gene name);
JMJD1B (gene name);
JHDM2A (gene name);
JHDM2B (gene name);
KDM7B (gene name);
PHF8 (gene name);
HR (gene name)
Class
Oxidoreductases;
Acting on paired donors, with incorporation or reduction of molecular oxygen;
With 2-oxoglutarate as one donor, and incorporation of one atom of oxygen into each donor
BRITE hierarchy
Sysname
[histone H3]-N6,N6-dimethyl-L-lysine9,2-oxoglutarate:oxygen oxidoreductase
Reaction(IUBMB)
a [histone H3]-N6,N6-dimethyl-L-lysine9 + 2 2-oxoglutarate + 2 O2 = a [histone H3]-L-lysine9 + 2 succinate + 2 formaldehyde + 2 CO2 (overall reaction) [RN:R10056];
(1a) a [histone H3]-N6,N6-dimethyl-L-lysine9 + 2-oxoglutarate + O2 = a [histone H3]-N6-methyl-L-lysine9 + succinate + formaldehyde + CO2 [RN:R09510];
(1b) a [histone H3]-N6-methyl-L-lysine9 + 2-oxoglutarate + O2 = a [histone H3]-L-lysine9 + succinate + formaldehyde + CO2 [RN:R09511]
Reaction(KEGG)
Substrate
[histone H3]-N6,N6-dimethyl-L-lysine9;
2-oxoglutarate [CPD:C00026];
O2 [CPD:C00007];
[histone H3]-N6-methyl-L-lysine9
Product
[histone H3]-L-lysine9;
succinate [CPD:C00042];
formaldehyde [CPD:C00067];
CO2 [CPD:C00011];
[histone H3]-N6-methyl-L-lysine9
Comment
Requires iron(II). This entry describes a group of enzymes that demethylate N-methylated Lys-9 residues in the tail of the histone protein H3 (H3K9). This lysine residue can exist in three methylation states (mono-, di- and trimethylated), but this group of enzymes only act on the the di- and mono-methylated forms. The enzymes are dioxygenases and act by hydroxylating the methyl group, forming an unstable hemiaminal that leaves as formaldehyde. cf. EC 1.14.11.66, [histone H3]-trimethyl-L-lysine9 demethylase.
History
EC 1.14.11.65 created 2019
Orthology
K00478  [histone H3]-dimethyl-L-lysine9 demethylase
K11445  [histone H3]-dimethyl-L-lysine9 demethylase
K15601  [histone H3]-dimethyl-L-lysine9 demethylase
K19415  [histone H3]-dimethyl-L-lysine9 demethylase
Genes
HSA: 23133(PHF8) 51780(KDM3B) 55806(HR) 55818(KDM3A) 80853(KDM7A)
PTR: 462095(KDM3B) 464040(HR) 465652(PHF8) 470424(KDM3A) 472532(KDM7A)
PPS: 100971462(KDM3A) 100973092(PHF8) 100974528(KDM7A) 100980801(HR) 100989674(KDM3B)
GGO: 101130195(KDM3A) 101132441(HR) 101133194(PHF8) 101143613(KDM7A) 101152151(KDM3B)
PON: 100439361(KDM7A) 100451474(HR) 100453519(KDM3A) 100461475(PHF8) 103890727(KDM3B)
NLE: 100580058(KDM3B) 100594054(HR) 100601220(PHF8) 100602763(KDM7A) 100602862(KDM3A)
MCC: 574164(HR) 697775(KDM3A) 703633(PHF8) 711830(KDM7A) 716648(KDM3B)
MCF: 101864801(KDM3A) 102126923(KDM3B) 102128432(PHF8) 102130334(KDM7A) 102146603(HR)
CSAB: 103215441(HR) 103219924(KDM3A) 103227008(KDM7A) 103232021(PHF8) 103244610(KDM3B)
RRO: 104656599(KDM7A) 104663955(HR) 104677068(KDM3A) 104681854(KDM3B) 104682297(PHF8)
CJC: 100400684(HR) 100402409(KDM3A) 100405152(KDM7A) 100405431(KDM3B) 100405966(PHF8) 103791420
SBQ: 101036878(KDM3B) 101038744(PHF8) 101041467(HR) 101048409(KDM3A) 101051188(KDM7A)
MMU: 104263(Kdm3a) 15460(Hr) 277250(Kdm3b) 320595(Phf8) 338523(Kdm7a)
MCAL: 110284500(Kdm3b) 110286584(Phf8) 110295891(Kdm3a) 110296568(Kdm7a) 110309466(Hr)
MPAH: 110313305(Phf8) 110314829(Kdm3a) 110316394(Kdm7a) 110325567(Hr) 110333384(Kdm3b) 110335393
RNO: 299557(RGD1310212) 312440(Kdm3a) 317425(Phf8) 60563(Hr) 682469(Kdm3b) 684297(Kdm7a)
CGE: 100752012(Kdm3b) 100756628(Phf8) 100765886(Hr) 100771108(Kdm3a) 100773228(Kdm7a) 100774109
NGI: 103726099(Kdm7a) 103735156(Kdm3b) 103737052(Kdm3a) 103747314(Phf8) 103747778(Hr)
HGL: 101699351(Kdm7a) 101710794(Hr) 101713897(Kdm3b) 101716284(Phf8) 101723328(Kdm3a)
CCAN: 109678510(Phf8) 109681363(Kdm3b) 109685469 109685470 109690461(Hr) 109695710(Kdm3a)
OCU: 100338358(KDM7A) 100344764(PHF8) 100346181(KDM3B) 100357019(HR) 100358329(KDM3A)
TUP: 102468331(KDM3B) 102482466(PHF8) 102483037(KDM7A) 102496564(KDM3A) 102497988(HR)
CFA: 474695(KDM3B) 475763(KDM3A) 482769(KDM7A) 486130(HR) 491897(PHF8)
VVP: 112907052(KDM7A) 112912465(PHF8) 112916661(KDM3A) 112921904(KDM3B) 112926824(HR)
AML: 100465004(KDM3B) 100478044(HR) 100481292(PHF8) 100482264(KDM3A) 100484484(KDM7A)
UMR: 103663948(KDM3B) 103669104(KDM7A) 103671466(KDM3A) 103673344(HR) 103681294(PHF8)
UAH: 113242954(KDM3A) 113247534(PHF8) 113261789(KDM3B) 113265016(KDM7A) 113270010(HR)
ORO: 101366569(KDM3B) 101368265(PHF8) 101374851(KDM7A) 101375149(KDM3A) 101381177(HR)
FCA: 101087899(KDM3B) 101090097(HR) 101091609(KDM7A) 101092337(PHF8) 101094014(KDM3A)
PTG: 102949083(KDM3B) 102951883(PHF8) 102952247(KDM7A) 102967684(KDM3A) 102971648(HR)
PPAD: 109252129(KDM3B) 109261301(PHF8) 109264121(KDM3A) 109269100(KDM7A) 109277357(HR)
AJU: 106968509(KDM3B) 106970395(KDM7A) 106978152(KDM3A) 106981121(HR) 106985228(PHF8)
BTA: 100848816(KDM3B) 513959(PHF8) 521504(KDM7A) 536073(KDM3A) 785815(HR)
BOM: 102268445(KDM3A) 102271352(KDM7A) 102283438(PHF8) 102284413(HR) 102288360(KDM3B)
BIU: 109554894(PHF8) 109557955(KDM7A) 109561075(KDM3B) 109563100(HR) 109566155(KDM3A)
BBUB: 102399076(KDM3B) 102402096(PHF8) 102404623(KDM7A) 102411447(HR) 102411697(KDM3A)
CHX: 102171151(HR) 102178793(KDM7A) 102184056(KDM3B) 102185576(KDM3A) 102186671 108634296(PHF8)
OAS: 101106756(KDM3A) 101111280(KDM3B) 101111627(KDM7A) 101118668(PHF8) 443241(HR)
SSC: 100515632(KDM7A) 100515884(KDM3B) 100517522(KDM3A) 100520413(PHF8) 397617(HR)
CFR: 102504168(KDM3A) 102517611(KDM3B) 102517929(HR) 102518453(PHF8) 102522822(KDM7A)
CDK: 105091085(KDM3B) 105091644(KDM7A) 105093683(PHF8) 105102729(HR) 105104170(KDM3A)
BACU: 103000070(KDM3A) 103000580(PHF8) 103013150(KDM7A) 103014592(HR) 103014807(KDM3B)
LVE: 103071419(PHF8) 103072442(KDM3A) 103077313(KDM7A) 103089463(KDM3B) 103089845(HR)
OOR: 101275638(KDM3B) 101278897(KDM7A) 101281085(KDM3A) 101287099(PHF8) 101289157(HR)
DLE: 111165409(KDM3A) 111169011(HR) 111169400(PHF8) 111177710(KDM7A) 111182496(KDM3B)
PCAD: 102977831(KDM3B) 102979345(PHF8) 102984422(KDM3A) 102990432(KDM7A) 102993125(HR)
ECB: 100053727(HR) 100060410(PHF8) 100062288(KDM3B) 100066113(KDM7A) 100066939(KDM3A)
EAI: 106827349(PHF8) 106838584(KDM3A) 106839246(KDM3B) 106842580(KDM7A) 106847718(HR)
MYB: 102241201(PHF8) 102254444(KDM3A) 102258695(HR) 102259727(KDM7A) 102262860(KDM3B)
MYD: 102752154(KDM7A) 102755445(HR) 102757708(KDM3A) 102759691(PHF8) 102770711(KDM3B)
MNA: 107528676(KDM3A) 107530125(KDM3B) 107531081(KDM7A) 107538839(PHF8) 107543545(HR)
HAI: 109375925(KDM3A) 109382348(HR) 109388530(KDM7A) 109393019(KDM3B) 109396386(PHF8)
DRO: 112299785(KDM7A) 112302945(KDM3A) 112305232(HR) 112308159(PHF8) 112318036(KDM3B)
PALE: 102880246(KDM7A) 102882413(KDM3A) 102893538(KDM3B) 102894028(PHF8) 102895975(HR)
RAY: 107506006(KDM3A) 107506610(PHF8) 107509236(HR) 107518719(KDM3B) 107519345(KDM7A)
LAV: 100654829(KDM3A) 100660627(PHF8) 100665548(KDM7A) 100671524(KDM3B) 100675014(HR)
MDO: 100017835(KDM7A) 100018142(KDM3A) 100019755(PHF8) 100025115(KDM3B) 100033094(HR)
SHR: 100913734(HR) 100914942(PHF8) 100917474(KDM3A) 100924702(KDM3B) 100933752(KDM7A)
PCW: 110196286(KDM3A) 110200432(HR) 110203535(PHF8) 110216227(KDM7A) 110220805(KDM3B)
OAA: 100076728(KDM7A) 100078761(PHF8) 100080666(KDM3A) 100088813(HR) 100092204(KDM3B)
GGA: 100859412(KDM3B) 107049623(HR) 418110(KDM7A) 422917(KDM3A)
MGP: 100540242(KDM3B) 100548885(KDM7A) 100550281(KDM3A) 104913311
CJO: 107313921(KDM3A) 107316012(KDM7A) 107320032(KDM3B)
NMEL: 110394301(KDM7A) 110398700(KDM3A) 110405432(KDM3B)
APLA: 101792656(KDM3A) 101799682(KDM3B) 101802308(KDM7A)
ACYG: 106031048(KDM7A) 106032716(KDM3B) 106034003(KDM3A)
TGU: 100223451(KDM7A) 100226128(KDM3B) 100226356(KDM3A) 115492034(PHF8) 115498188(HR)
LSR: 110473305(KDM3A) 110477356(KDM3B) 110479416(HR) 110480571(PHF8) 110482623(KDM7A)
SCAN: 103817543(KDM3B) 103819605(KDM7A) 103823538(KDM3A) 103825198 108963604
GFR: 102033931(KDM3B) 102033961(KDM7A) 102038017(KDM3A)
FAB: 101806930(HR) 101812676(KDM3B) 101812948(KDM7A) 101820866(KDM3A)
PHI: 102101072(KDM3A) 102106638(KDM7A) 102106682(KDM3B) 102114626(HR)
PMAJ: 107202896(KDM3A) 107204765(KDM7A) 107210627(KDM3B) 107213805(HR)
CCAE: 111922176 111928304(KDM3A) 111935420(KDM3B) 111936971(KDM7A) 111942998
CCW: 104689460(KDM3B) 104690808(KDM3A) 104696183(KDM7A)
ETL: 114056173(KDM7A) 114058529(KDM3A) 114067189(KDM3B) 114070083 114072159
FPG: 101918015(KDM3A) 101919240(HR) 101921419(KDM3B) 101923116(PHF8) 101924888(KDM7A)
FCH: 102045971(KDM3B) 102050963(HR) 102058181(KDM3A) 102058196(KDM7A) 102059772(PHF8)
CLV: 102084952(KDM7A) 102085459(KDM3A) 102092569(KDM3B) 102095540(HR) 110356542
EGZ: 104123613(KDM3B) 104135249(KDM3A) 104135567(KDM7A)
NNI: 104012063(KDM3B) 104012064 104012378(KDM7A) 104016037 104018538(KDM3A)
ACUN: 113479415(KDM3A) 113485115(KDM3B) 113488583(KDM7A)
PADL: 103923118(KDM3B) 103923511(KDM3A) 103924516(KDM7A)
AAM: 106484895(KDM3A) 106487160(KDM3B) 106488270(KDM7A) 106497482 106497483
ASN: 102367801(PHF8) 102369743(KDM3A) 102375877(HR) 102384419(KDM7A) 102385873(KDM3B)
AMJ: 102561002(HR) 102564045(KDM3A) 102565368(KDM7A) 102572481(KDM3B) 102576916(PHF8)
PSS: 102451224(KDM3A) 102452179(KDM7A) 102459230(KDM3B)
CMY: 102934784(KDM3A) 102936854(KDM7A) 102938050(HR) 102940552 102942689(KDM3B)
CPIC: 101931158(PHF8) 101931208(KDM7A) 101938224(KDM3B) 101943939(KDM3A) 101944418(HR)
ACS: 100558799(kdm7a) 100565622(kdm3b) 100566919(phf8)
PVT: 110077141(KDM3B) 110078613(PHF8) 110082708(KDM7A)
PBI: 103049534(KDM3B) 103057322(PHF8) 103057981(KDM7A)
PMUR: 107286551(PHF8) 107289184(KDM3B) 107291326(KDM7A)
TSR: 106545401(KDM3B) 106549042(PHF8) 106557367(KDM7A)
PMUA: 114587329(PHF8) 114591477(KDM3B) 114604965(KDM7A)
GJA: 107107150(KDM3B) 107108788(KDM7A) 107120718(PHF8)
XLA: 108699998(phf8.S) 108710732 108711000(kdm3b.L) 108713217(kdm3b.S) 398683(phf8.L) 432112(kdm3a.L) 444005(kdm7a.L) 496351(kdm3a.S)
XTR: 100135177(kdm3b) 100379807(kdm3a) 733740(phf8) 780121(kdm7a)
NPR: 108790443(PHF8) 108798114(KDM3B) 108798478(KDM7A) 108799576(KDM3A)
DRE: 321248(kdm7aa) 326643(kdm3b) 503902(kdm7ab) 566534(phf8)
IPU: 108268841(kdm3b) 108268891 108276206(phf8) 108279642(kdm7a)
PHYP: 113523883 113530637(phf8) 113542755(kdm3b) 113546643(kdm7a)
AMEX: 103031714(kdm7a) 103035987(kdm3b) 103038657(phf8) 103040257
EEE: 113569278(kdm7a) 113570716(kdm3b) 113583350 113584437(phf8)
TRU: 101063341(phf8) 101066593(kdm3b) 101076981(kdm7a)
LCO: 104922718(kdm3b) 104925311(kdm7a) 104932735(phf8)
NCC: 104954674(kdm3b) 104956848(phf8) 104968057(kdm7a)
MZE: 101478139(phf8) 101482566(kdm3b) 101484672(kdm7a)
ONL: 100690767(kdm3b) 100699317(kdm7a) 100707999(phf8)
OLA: 101156787(kdm7a) 101158953(kdm3b) 101166128(phf8)
XMA: 102222440(phf8) 102233421(kdm7a) 102236626(kdm3b)
XCO: 114139068(kdm3b) 114145833(phf8) 114160655(kdm7a)
PRET: 103459110(kdm7a) 103467329(phf8) 103471239(kdm3b)
CVG: 107086788(phf8) 107095910(kdm7a) 107101767(kdm3b)
NFU: 107375406(kdm3b) 107386380(kdm7a) 107390865(phf8)
KMR: 108233298(kdm7a) 108240570(kdm3b) 108244610(phf8)
ALIM: 106514823(kdm7a) 106517661(kdm3b) 106534448(phf8)
AOCE: 111569066(kdm7a) 111573437(kdm3b) 111576533(phf8)
CSEM: 103382718(kdm7a) 103384580(phf8) 103391012(kdm3b)
POV: 109630635(phf8) 109639123(kdm3b) 109642794(kdm7a)
LCF: 108876399(phf8) 108886202(kdm7a) 108899237
SDU: 111219101(phf8) 111224552(kdm7a) 111226425(kdm3b)
HCQ: 109518753(kdm3b) 109520217(phf8) 109523662(kdm7a)
BPEC: 110157613(kdm3b) 110161650(kdm7a) 110164574(phf8)
MALB: 109969690(kdm7a) 109971338(phf8) 109973152(kdm3b)
PKI: 111850514 111851237(kdm7a) 111855168(kdm3b) 111857050(phf8) 111857561
LCM: 102357423(KDM3B) 102358546(KDM3A) 102360659(PHF8) 102364075(KDM7A)
CMK: 103174084(phf8) 103177263(kdm3b) 103181484(kdm3a) 103181879(kdm7a)
CIN: 100186291
APLC: 110974246
SKO: 102803799
DME: Dmel_CG8165(JHDM2)
DER: 6551800
DSR: 110186612
DPE: 6592144
DMN: 108154097
DWI: 6650461
DAZ: 108620885
DNV: 108659609
DHE: 111593343
MDE: 101898867
LCQ: 111690288
AAG: 5568859
NVI: 100120387
CSOL: 105368368
BMOR: 101737516
PMAC: 106719698
BTAB: 109034424
DPTE: 113793692
BMY: Bm1_27370
TSP: Tsp_10660
CRG: 105349098
MYI: 110460958
OBI: 106875029
AMIL: 114969021
PDAM: 113667011
SPIS: 111335348
LJA: Lj0g3v0008949.1(Lj0g3v0008949.1) Lj0g3v0183709.1(Lj0g3v0183709.1) Lj0g3v0183709.2(Lj0g3v0183709.2) Lj0g3v0226069.1(Lj0g3v0226069.1) Lj0g3v0266619.1(Lj0g3v0266619.1) Lj0g3v0269949.1(Lj0g3v0269949.1) Lj0g3v0359099.1(Lj0g3v0359099.1) Lj1g3v0725870.1(Lj1g3v0725870.1) Lj1g3v5035010.1(Lj1g3v5035010.1) Lj3g3v2443330.1(Lj3g3v2443330.1) Lj4g3v0134600.1(Lj4g3v0134600.1) Lj4g3v0134600.2(Lj4g3v0134600.2) Lj5g3v2258440.1(Lj5g3v2258440.1) Lj6g3v1812130.1(Lj6g3v1812130.1) Lj6g3v2115770.1(Lj6g3v2115770.1)
DOSA: Os02t0109400-00(Os02g0109400) Os02t0109501-00(Os02g0109501) Os02t0828900-01(Os02g0828900) Os03t0346700-01(Os03g0346700) Os03t0430400-01(Os03g0430400) Os09t0393200-01(Os09g0393200)
ATS: 109735815(LOC109735815) 109751030(LOC109751030) 109762874(LOC109762874) 109778383(LOC109778383)
CNE: CNB00050
CNB: CNBB5640
ABP: AGABI1DRAFT79449(AGABI1DRAFT_79449)
ABV: AGABI2DRAFT184322(AGABI2DRAFT_184322)
 » show all
Taxonomy
Reference
1  [PMID:16603237]
  Authors
Yamane K, Toumazou C, Tsukada Y, Erdjument-Bromage H, Tempst P, Wong J, Zhang Y
  Title
JHDM2A, a JmjC-containing H3K9 demethylase, facilitates transcription activation  by androgen receptor.
  Journal
Cell 125:483-95 (2006)
DOI:10.1016/j.cell.2006.03.027
  Sequence
[hsa:55818]
Reference
2  [PMID:17938240]
  Authors
Loh YH, Zhang W, Chen X, George J, Ng HH
  Title
Jmjd1a and Jmjd2c histone H3 Lys 9 demethylases regulate self-renewal in embryonic stem cells.
  Journal
Genes Dev 21:2545-57 (2007)
Reference
3  [PMID:20208542]
  Authors
Feng W, Yonezawa M, Ye J, Jenuwein T, Grummt I
  Title
PHF8 activates transcription of rRNA genes through H3K4me3 binding and H3K9me1/2  demethylation.
  Journal
Nat Struct Mol Biol 17:445-50 (2010)
  Sequence
[hsa:23133]
Reference
4  [PMID:24009392]
  Authors
Kuroki S, Matoba S, Akiyoshi M, Matsumura Y, Miyachi H, Mise N, Abe K, Ogura A, Wilhelm D, Koopman P, Nozaki M, Kanai Y, Shinkai Y, Tachibana M
  Title
Epigenetic regulation of mouse sex determination by the histone demethylase Jmjd1a.
  Journal
Science 341:1106-9 (2013)
  Sequence
[mmu:104263]
Reference
5  [PMID:24334705]
  Authors
Liu L, Kim H, Casta A, Kobayashi Y, Shapiro LS, Christiano AM
  Title
Hairless is a histone H3K9 demethylase.
  Journal
FASEB J 28:1534-42 (2014)
DOI:10.1096/fj.13-237677
  Sequence
[hsa:55806]
Other DBs
ExplorEnz - The Enzyme Database: 1.14.11.65
IUBMB Enzyme Nomenclature: 1.14.11.65
ExPASy - ENZYME nomenclature database: 1.14.11.65
BRENDA, the Enzyme Database: 1.14.11.65

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