UniProtKB - Q62240 (KDM5D_MOUSE)

>sp|Q62240|KDM5D_MOUSE Lysine-specific demethylase 5D OS=Mus musculus OX=10090 GN=Kdm5d PE=2 SV=2
MKPGSDDFLPPPECPVFEPSWAEFRDPLGYIAKIRPIAEKSGICKIRPPADWQPPFAVEV
DNFRFTPRIQRLNELEAQTRVKLNYLDQIAKFWEIQGSSLKIPNVERKILDLYSLNKIVM
EEGGYEAICKDRRWARVAQRLNYPSGKNIGSLLRSHYERIIYPYEIFQSGANLVQCNTDP
FDSEERDKEYKPHSIPLRQSVQPSKFSCYSRRGKRLQPEPEPTEEDIEKNPELKKLQIYG
AGPKMIGLGLKAKEKTLRKKDSKQPDKEEVTCPATIVVKGEASEFGKVTSAFSDKNLNHS
FEPCMKMTMQLRNNHSSTQFMNSYVCRICSRGDEVDKFLLCDGCSDNYHIFCLLPPLSEV
PKGVWRCPKCILAECKSPPEAFGFEQATQEYTLQSFGEMADSFKADYFNMPVHMVPTEVV
EKEFWRLVSSIEEDVTVEYGADIHSKEFGSGFPVNNSKWDLSPEEKEYAACGWNLNVMPV
LDQSVLCHINADISGMKVPWLYVGMVFSAFCWHIEDHWSYSINYLHWGEPKTWYGVPSLA
AEHLEDVMKRLTPELFDSQPDLLHQLVTLMNPNTLMSHGVPVVRTNQCAGEFVITFPRAY
HSGFNQGYNFAEAVNFCTADWLPVGRQCIEHYRRLRRYCVFSHEELICKMAAFPEKLDLN
LAVAVHKEMFIMVQEERRLRKTLLEKGITEAEREAFELLPDDERQCIKCKTTCFLSALAC
YDCPDSLVCLSHINDLCKCSRNRQYLRYRYTLDELPAMLQKLKIRAESFDNWANKVQAAL
EVEDGRKRSFEELRALESEARDRRFPNSELLQRLKKCLTEAEACISQVLGLISNSEDRLQ
TPQITLTELQLLLKQMGTLPCTMHQIDEVKDVLQQVESYQIETREALTSLPYSLEILQSL
MEKGQQLRVEVPEAHQLEELLEQAQWLDQVKQALAPSGQRHSLVIMKKLLVMGTKVASSP
SVNKARAELQELLTIAECWEEKAHFCLKASQKHSPATLEVIIREAENIPVYLPNIQSLKE
ALTKAQAWIADVNEIQNGDHYPCLDDLEGLVAVGRDLPVELEELRQLENQVLTAHSWKEK
ASKTFLKKNSCYTLLEVLCPCADAGSVSTKRSRWIEKEMGLYKYDTELLGLSAQDLRDPG
SVIMAFKEGEEKEKEGILHLRHINSAKPSPMSSSMNASATSICICGQVCAGVESLQCDLC
HDWFHGQCVTVPHLLSSVRASHTSSQLLAWWEWDTKFLCPLCMRSRRPRLETILSLLVGL
QRLSVRLPEGEALQCLTERAIGWQGRARQALASEDVTALLKQLEKSRQQLQDELRHKKPP
TLPSGFAFDCLTENSGKDILKEEEELVLNEERIKSSEKIVPKESSCKGDKELLPSLLSQL
TGPVLELPEATRAPLEELMMEGDLLEVTLDENYSIWQLLQAGQNPNLERIHTLLELEKPE
NPGNWSEEQTPERRRQRRQKVVLSRKGEDFTQKELESKRVKSSRIKPKEEKFQKPILGDN
VLYTHHTEHTNILKEHINSVQGKDPSPSSSFPSLTPLLHLSYFHQQKL

Entry version 162 (02 Dec 2020)
Sequence version 2 (24 Oct 2001)
Previous versions | rss

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Protein

Lysine-specific demethylase 5D

Gene

Kdm5d

Organism

Mus musculus (Mouse)

Status

Reviewed-Annotation score: -Experimental evidence at transcript levelⁱ

Functionⁱ

Histone demethylase that specifically demethylates 'Lys-4' of histone H3, thereby playing a central role in histone code. Does not demethylate histone H3 'Lys-9', H3 'Lys-27', H3 'Lys-36', H3 'Lys-79' or H4 'Lys-20'. Demethylates trimethylated and dimethylated but not monomethylated H3 'Lys-4'. May play a role in spermatogenesis. Involved in transcriptional repression of diverse metastasis-associated genes; in this function seems to cooperate with ZMYND8. Suppresses prostate cancer cell invasion. Regulates androgen receptor (AR) transcriptional activity by demethylating H3K4me3 active transcription marks (By similarity).By similarity2 Publications

Miscellaneous

KDM5D encodes an H-Y epitope that is defined by the octamer peptide TENSGKDI; since no similar peptide was found in KDM5C, it is presumably the genetic basis for the antigenic difference between males and females that contributes toward a tissue transplant rejection response.

Catalytic activityⁱ

3
2-oxoglutarate
Search proteins in UniProtKB for this molecule.
Search chemical reactions in Rhea for this molecule.
See the description of this molecule in ChEBI.
+
N⁶,N⁶,N⁶-trimethyl-L-lysyl⁴-[histone H3]
Search proteins in UniProtKB for this molecule.
Search chemical reactions in Rhea for this molecule.
+ 3
O₂
Search proteins in UniProtKB for this molecule.
Search chemical reactions in Rhea for this molecule.
See the description of this molecule in ChEBI.
= 3
CO₂
Search proteins in UniProtKB for this molecule.
Search chemical reactions in Rhea for this molecule.
See the description of this molecule in ChEBI.
+ 3
formaldehyde
Search proteins in UniProtKB for this molecule.
Search chemical reactions in Rhea for this molecule.
See the description of this molecule in ChEBI.
+
L-lysyl⁴-[histone H3]
Search proteins in UniProtKB for this molecule.
Search chemical reactions in Rhea for this molecule.
+ 3
succinate
Search proteins in UniProtKB for this molecule.
Search chemical reactions in Rhea for this molecule.
See the description of this molecule in ChEBI.
By similarity
Manual assertion inferred from sequence similarity toⁱ
- UniProtKB:Q9BY66 (KDM5D_HUMAN)
EC:
1.14.11.67
- Search proteins in UniProtKB for this EC number.
- See the description of this EC number in ENZYME.
By similarity
Manual assertion inferred from sequence similarity toⁱ
- UniProtKB:Q9BY66 (KDM5D_HUMAN)
Source:
Rhea
Search for this reaction in UniProtKB.
See the description of this reaction in Rhea.
. Show »« Hide
3
2-oxoglutarate
zoom
+
N⁶,N⁶,N⁶-trimethyl-L-lysyl⁴-[histone H3]
N⁶,N⁶,N⁶-trimethyl-L-lysine residue
zoom
+
3
O₂
=
3
CO₂
+
3
formaldehyde
zoom
+
L-lysyl⁴-[histone H3]
L-lysine residue
zoom
+
3
succinate
zoom

Cofactorⁱ

Protein has several cofactor binding sites:

Sites

Feature key	Position(s)	DescriptionActions	Length
Binding siteⁱ	439	2-oxoglutarateBy similarity	1
Metal bindingⁱ	513	Iron; catalyticPROSITE-ProRule annotation	1
Metal bindingⁱ	515	Iron; catalyticBy similarity	1
Binding siteⁱ	521	2-oxoglutarateBy similarity	1
Binding siteⁱ	523	2-oxoglutarateBy similarity	1
Binding siteⁱ	531	2-oxoglutarateBy similarity	1
Metal bindingⁱ	601	Iron; catalyticPROSITE-ProRule annotation	1

Regions

Feature key	Position(s)	DescriptionActions	Length
Zinc fingerⁱ	325 – 371	PHD-type 1PROSITE-ProRule annotationAdd BLAST	47
Zinc fingerⁱ	706 – 758	C5HC2By similarityAdd BLAST	53
Zinc fingerⁱ	1182 – 1243	PHD-type 2PROSITE-ProRule annotationAdd BLAST	62

GO - Molecular functionⁱ

Complete GO annotation on QuickGO ...

GO - Biological processⁱ

Complete GO annotation on QuickGO ...

Keywordsⁱ

Molecular function	Chromatin regulator, Dioxygenase, Oxidoreductase
Biological process	Transcription, Transcription regulation
Ligand	Iron, Metal-binding, Zinc

Names & Taxonomyⁱ

Protein namesⁱ	Recommended name: Lysine-specific demethylase 5D (EC:1.14.11.67By similarity) Alternative name(s): Histocompatibility Y antigen Short name: H-Y Histone demethylase JARID1D Jumonji/ARID domain-containing protein 1D Protein SmcY [histone H3]-trimethyl-L-lysine(4) demethylase 5DCurated
Gene namesⁱ	Name:Kdm5d Synonyms:Hya, Jarid1d, Smcy
Organismⁱ	Mus musculus (Mouse)
Taxonomic identifierⁱ	10090 [NCBI]
Taxonomic lineageⁱ	cellular organisms › Eukaryota › Opisthokonta › Metazoa › Eumetazoa › Bilateria › Deuterostomia › Chordata › Craniata › Vertebrata › Gnathostomata › Teleostomi › Euteleostomi › Sarcopterygii › Dipnotetrapodomorpha › Tetrapoda › Amniota › Mammalia › Theria › Eutheria › Boreoeutheria › Euarchontoglires › Glires › Rodentia › Myomorpha › Muroidea › Muridae › Murinae › Mus › Mus
Proteomesⁱ	UP000000589 Componentⁱ: Chromosome Y

Organism-specific databases

MGIⁱ	MGI:99780, Kdm5d

Keywords - Cellular componentⁱ

Nucleus

PTM / Processingⁱ

Molecule processing

Feature key	Position(s)	DescriptionActions	Graphical view	Length
ChainⁱPRO_0000200589	1 – 1548	Lysine-specific demethylase 5DAdd BLAST		1548

Amino acid modifications

Feature key	Position(s)	DescriptionActions	Length
Cross-linkⁱ	205	Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2)By similarity
Cross-linkⁱ	229	Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2)By similarity
Cross-linkⁱ	244	Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2)By similarity
Cross-linkⁱ	279	Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2)By similarity
Modified residueⁱ	300	PhosphoserineBy similarity	1
Modified residueⁱ	316	PhosphoserineBy similarity	1
Modified residueⁱ	889	PhosphoserineBy similarity	1
Modified residueⁱ	893	PhosphoserineBy similarity	1
Cross-linkⁱ	1123	Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2)By similarity
Modified residueⁱ	1355	PhosphoserineBy similarity	1

Keywords - PTMⁱ

Isopeptide bond, Phosphoprotein, Ubl conjugation

Proteomic databases

EPDⁱ	Q62240
PaxDbⁱ	Q62240
PeptideAtlas More...PeptideAtlasⁱ	Q62240
PRIDEⁱ	Q62240

PTM databases

iPTMnetⁱ	Q62240
PhosphoSitePlusⁱ	Q62240

Expressionⁱ

Gene expression databases

Bgeeⁱ	ENSMUSG00000056673, Expressed in undifferentiated genital tubercle and 240 other tissues
ExpressionAtlasⁱ	Q62240, baseline and differential
Genevisibleⁱ	Q62240, MM

Interactionⁱ

Subunit structureⁱ

Interacts withPCGF6, MSH5, ZMYND8, AR.

By similarity

GO - Molecular functionⁱ

androgen receptor binding Source: MGI

Complete GO annotation on QuickGO ...

Protein-protein interaction databases

BioGRIDⁱ	203342, 5 interactors
STRINGⁱ	10090.ENSMUSP00000061095

Miscellaneous databases

RNActⁱ	Q62240, protein

RNActⁱ

Q62240, protein

Structureⁱ

3D structure databases

SMRⁱ	Q62240
ModBaseⁱ	Search...

Family & Domainsⁱ

Domains and Repeats

Feature key	Position(s)	DescriptionActions	Length
Domainⁱ	14 – 55	JmjNPROSITE-ProRule annotationAdd BLAST	42
Domainⁱ	79 – 169	ARIDPROSITE-ProRule annotationAdd BLAST	91
Domainⁱ	467 – 633	JmjCPROSITE-ProRule annotationAdd BLAST	167

Domainⁱ

The JmjC domain is required for enzymatic activity.By similarity

Sequence similaritiesⁱ

Belongs to the JARID1 histone demethylase family.Curated

Zinc finger

Feature key	Position(s)	DescriptionActions	Length
Zinc fingerⁱ	325 – 371	PHD-type 1PROSITE-ProRule annotationAdd BLAST	47
Zinc fingerⁱ	706 – 758	C5HC2By similarityAdd BLAST	53
Zinc fingerⁱ	1182 – 1243	PHD-type 2PROSITE-ProRule annotationAdd BLAST	62

Keywords - Domainⁱ

Repeat, Zinc-finger

Phylogenomic databases

eggNOGⁱ	KOG1246, Eukaryota
Ensembl GeneTree More...GeneTreeⁱ	ENSGT00940000161236
HOGENOMⁱ	CLU_000991_2_2_1
InParanoidⁱ	Q62240
OMAⁱ	CECPPEN
Database of Orthologous Groups More...OrthoDBⁱ	664180at2759
PhylomeDBⁱ	Q62240
TreeFamⁱ	TF106476

Family and domain databases

Gene3Dⁱ	1.10.150.60, 1 hit 3.30.40.10, 1 hit
InterProⁱ	View protein in InterPro IPR001606, ARID_dom IPR036431, ARID_dom_sf IPR003347, JmjC_dom IPR003349, JmjN IPR013637, Lys_sp_deMease-like_dom IPR019786, Zinc_finger_PHD-type_CS IPR004198, Znf_C5HC2 IPR011011, Znf_FYVE_PHD IPR001965, Znf_PHD IPR019787, Znf_PHD-finger IPR013083, Znf_RING/FYVE/PHD
Pfam protein domain database More...Pfamⁱ	View protein in Pfam PF01388, ARID, 1 hit PF02373, JmjC, 1 hit PF02375, JmjN, 1 hit PF00628, PHD, 1 hit PF08429, PLU-1, 1 hit PF02928, zf-C5HC2, 1 hit
SMARTⁱ	View protein in SMART SM00501, BRIGHT, 1 hit SM00558, JmjC, 1 hit SM00545, JmjN, 1 hit SM00249, PHD, 2 hits
SUPFAMⁱ	SSF46774, SSF46774, 1 hit SSF57903, SSF57903, 2 hits
PROSITEⁱ	View protein in PROSITE PS51011, ARID, 1 hit PS51184, JMJC, 1 hit PS51183, JMJN, 1 hit PS01359, ZF_PHD_1, 2 hits PS50016, ZF_PHD_2, 1 hit

Sequences (4+)ⁱ

Sequence statusⁱ: Complete.

This entry describes 4 isoformsⁱ produced by alternative splicing. Align Add to basket

This entry has 4 described isoforms and 2 potential isoforms that are computationally mapped.Show all Align All

Isoform 1 (identifier: Q62240-1) [UniParc]FASTA Add to basket

This isoform has been chosen as the canonicalⁱ sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.

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        10         20         30         40         50
MKPGSDDFLP PPECPVFEPS WAEFRDPLGY IAKIRPIAEK SGICKIRPPA 
        60         70         80         90        100
DWQPPFAVEV DNFRFTPRIQ RLNELEAQTR VKLNYLDQIA KFWEIQGSSL 
       110        120        130        140        150
KIPNVERKIL DLYSLNKIVM EEGGYEAICK DRRWARVAQR LNYPSGKNIG 
       160        170        180        190        200
SLLRSHYERI IYPYEIFQSG ANLVQCNTDP FDSEERDKEY KPHSIPLRQS 
       210        220        230        240        250
VQPSKFSCYS RRGKRLQPEP EPTEEDIEKN PELKKLQIYG AGPKMIGLGL 
       260        270        280        290        300
KAKEKTLRKK DSKQPDKEEV TCPATIVVKG EASEFGKVTS AFSDKNLNHS 
       310        320        330        340        350
FEPCMKMTMQ LRNNHSSTQF MNSYVCRICS RGDEVDKFLL CDGCSDNYHI 
       360        370        380        390        400
FCLLPPLSEV PKGVWRCPKC ILAECKSPPE AFGFEQATQE YTLQSFGEMA 
       410        420        430        440        450
DSFKADYFNM PVHMVPTEVV EKEFWRLVSS IEEDVTVEYG ADIHSKEFGS 
       460        470        480        490        500
GFPVNNSKWD LSPEEKEYAA CGWNLNVMPV LDQSVLCHIN ADISGMKVPW 
       510        520        530        540        550
LYVGMVFSAF CWHIEDHWSY SINYLHWGEP KTWYGVPSLA AEHLEDVMKR 
       560        570        580        590        600
LTPELFDSQP DLLHQLVTLM NPNTLMSHGV PVVRTNQCAG EFVITFPRAY 
       610        620        630        640        650
HSGFNQGYNF AEAVNFCTAD WLPVGRQCIE HYRRLRRYCV FSHEELICKM 
       660        670        680        690        700
AAFPEKLDLN LAVAVHKEMF IMVQEERRLR KTLLEKGITE AEREAFELLP 
       710        720        730        740        750
DDERQCIKCK TTCFLSALAC YDCPDSLVCL SHINDLCKCS RNRQYLRYRY 
       760        770        780        790        800
TLDELPAMLQ KLKIRAESFD NWANKVQAAL EVEDGRKRSF EELRALESEA 
       810        820        830        840        850
RDRRFPNSEL LQRLKKCLTE AEACISQVLG LISNSEDRLQ TPQITLTELQ 
       860        870        880        890        900
LLLKQMGTLP CTMHQIDEVK DVLQQVESYQ IETREALTSL PYSLEILQSL 
       910        920        930        940        950
MEKGQQLRVE VPEAHQLEEL LEQAQWLDQV KQALAPSGQR HSLVIMKKLL 
       960        970        980        990       1000
VMGTKVASSP SVNKARAELQ ELLTIAECWE EKAHFCLKAS QKHSPATLEV 
      1010       1020       1030       1040       1050
IIREAENIPV YLPNIQSLKE ALTKAQAWIA DVNEIQNGDH YPCLDDLEGL 
      1060       1070       1080       1090       1100
VAVGRDLPVE LEELRQLENQ VLTAHSWKEK ASKTFLKKNS CYTLLEVLCP 
      1110       1120       1130       1140       1150
CADAGSVSTK RSRWIEKEMG LYKYDTELLG LSAQDLRDPG SVIMAFKEGE 
      1160       1170       1180       1190       1200
EKEKEGILHL RHINSAKPSP MSSSMNASAT SICICGQVCA GVESLQCDLC 
      1210       1220       1230       1240       1250
HDWFHGQCVT VPHLLSSVRA SHTSSQLLAW WEWDTKFLCP LCMRSRRPRL 
      1260       1270       1280       1290       1300
ETILSLLVGL QRLSVRLPEG EALQCLTERA IGWQGRARQA LASEDVTALL 
      1310       1320       1330       1340       1350
KQLEKSRQQL QDELRHKKPP TLPSGFAFDC LTENSGKDIL KEEEELVLNE 
      1360       1370       1380       1390       1400
ERIKSSEKIV PKESSCKGDK ELLPSLLSQL TGPVLELPEA TRAPLEELMM 
      1410       1420       1430       1440       1450
EGDLLEVTLD ENYSIWQLLQ AGQNPNLERI HTLLELEKPE NPGNWSEEQT 
      1460       1470       1480       1490       1500
PERRRQRRQK VVLSRKGEDF TQKELESKRV KSSRIKPKEE KFQKPILGDN 
      1510       1520       1530       1540 
VLYTHHTEHT NILKEHINSV QGKDPSPSSS FPSLTPLLHL SYFHQQKL

Length:1,548

Mass (Da):177,018

Last modified:October 24, 2001 - v2

Checksum:ⁱ44AAB94708EA4A02

Isoform 2 (identifier: Q62240-2) [UniParc]FASTA Add to basket

The sequence of this isoform differs from the canonical sequence as follows:
1-398: Missing.

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        10         20         30         40         50
MADSFKADYF NMPVHMVPTE VVEKEFWRLV SSIEEDVTVE YGADIHSKEF 
        60         70         80         90        100
GSGFPVNNSK WDLSPEEKEY AACGWNLNVM PVLDQSVLCH INADISGMKV 
       110        120        130        140        150
PWLYVGMVFS AFCWHIEDHW SYSINYLHWG EPKTWYGVPS LAAEHLEDVM 
       160        170        180        190        200
KRLTPELFDS QPDLLHQLVT LMNPNTLMSH GVPVVRTNQC AGEFVITFPR 
       210        220        230        240        250
AYHSGFNQGY NFAEAVNFCT ADWLPVGRQC IEHYRRLRRY CVFSHEELIC 
       260        270        280        290        300
KMAAFPEKLD LNLAVAVHKE MFIMVQEERR LRKTLLEKGI TEAEREAFEL 
       310        320        330        340        350
LPDDERQCIK CKTTCFLSAL ACYDCPDSLV CLSHINDLCK CSRNRQYLRY 
       360        370        380        390        400
RYTLDELPAM LQKLKIRAES FDNWANKVQA ALEVEDGRKR SFEELRALES 
       410        420        430        440        450
EARDRRFPNS ELLQRLKKCL TEAEACISQV LGLISNSEDR LQTPQITLTE 
       460        470        480        490        500
LQLLLKQMGT LPCTMHQIDE VKDVLQQVES YQIETREALT SLPYSLEILQ 
       510        520        530        540        550
SLMEKGQQLR VEVPEAHQLE ELLEQAQWLD QVKQALAPSG QRHSLVIMKK 
       560        570        580        590        600
LLVMGTKVAS SPSVNKARAE LQELLTIAEC WEEKAHFCLK ASQKHSPATL 
       610        620        630        640        650
EVIIREAENI PVYLPNIQSL KEALTKAQAW IADVNEIQNG DHYPCLDDLE 
       660        670        680        690        700
GLVAVGRDLP VELEELRQLE NQVLTAHSWK EKASKTFLKK NSCYTLLEVL 
       710        720        730        740        750
CPCADAGSVS TKRSRWIEKE MGLYKYDTEL LGLSAQDLRD PGSVIMAFKE 
       760        770        780        790        800
GEEKEKEGIL HLRHINSAKP SPMSSSMNAS ATSICICGQV CAGVESLQCD 
       810        820        830        840        850
LCHDWFHGQC VTVPHLLSSV RASHTSSQLL AWWEWDTKFL CPLCMRSRRP 
       860        870        880        890        900
RLETILSLLV GLQRLSVRLP EGEALQCLTE RAIGWQGRAR QALASEDVTA 
       910        920        930        940        950
LLKQLEKSRQ QLQDELRHKK PPTLPSGFAF DCLTENSGKD ILKEEEELVL 
       960        970        980        990       1000
NEERIKSSEK IVPKESSCKG DKELLPSLLS QLTGPVLELP EATRAPLEEL 
      1010       1020       1030       1040       1050
MMEGDLLEVT LDENYSIWQL LQAGQNPNLE RIHTLLELEK PENPGNWSEE 
      1060       1070       1080       1090       1100
QTPERRRQRR QKVVLSRKGE DFTQKELESK RVKSSRIKPK EEKFQKPILG 
      1110       1120       1130       1140       1150
DNVLYTHHTE HTNILKEHIN SVQGKDPSPS SSFPSLTPLL HLSYFHQQKL

Show »

Length:1,150

Mass (Da):131,396

Checksum:ⁱ2920BEB66B2E98CF

Isoform 3 (identifier: Q62240-3) [UniParc]FASTA Add to basket

The sequence of this isoform differs from the canonical sequence as follows:
583-586: VRTN → SIWK
587-1548: Missing.

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        10         20         30         40         50
MKPGSDDFLP PPECPVFEPS WAEFRDPLGY IAKIRPIAEK SGICKIRPPA 
        60         70         80         90        100
DWQPPFAVEV DNFRFTPRIQ RLNELEAQTR VKLNYLDQIA KFWEIQGSSL 
       110        120        130        140        150
KIPNVERKIL DLYSLNKIVM EEGGYEAICK DRRWARVAQR LNYPSGKNIG 
       160        170        180        190        200
SLLRSHYERI IYPYEIFQSG ANLVQCNTDP FDSEERDKEY KPHSIPLRQS 
       210        220        230        240        250
VQPSKFSCYS RRGKRLQPEP EPTEEDIEKN PELKKLQIYG AGPKMIGLGL 
       260        270        280        290        300
KAKEKTLRKK DSKQPDKEEV TCPATIVVKG EASEFGKVTS AFSDKNLNHS 
       310        320        330        340        350
FEPCMKMTMQ LRNNHSSTQF MNSYVCRICS RGDEVDKFLL CDGCSDNYHI 
       360        370        380        390        400
FCLLPPLSEV PKGVWRCPKC ILAECKSPPE AFGFEQATQE YTLQSFGEMA 
       410        420        430        440        450
DSFKADYFNM PVHMVPTEVV EKEFWRLVSS IEEDVTVEYG ADIHSKEFGS 
       460        470        480        490        500
GFPVNNSKWD LSPEEKEYAA CGWNLNVMPV LDQSVLCHIN ADISGMKVPW 
       510        520        530        540        550
LYVGMVFSAF CWHIEDHWSY SINYLHWGEP KTWYGVPSLA AEHLEDVMKR 
       560        570        580 
LTPELFDSQP DLLHQLVTLM NPNTLMSHGV PVSIWK

Note: May be due to an intron retention.Curated

Show »

Length:586

Mass (Da):67,244

Checksum:ⁱA5764F58390D60F8

Isoform 4 (identifier: Q62240-4) [UniParc]FASTA Add to basket

The sequence of this isoform differs from the canonical sequence as follows:
687-691: GITEA → LSLQA
692-1548: Missing.

« Hide

        10         20         30         40         50
MKPGSDDFLP PPECPVFEPS WAEFRDPLGY IAKIRPIAEK SGICKIRPPA 
        60         70         80         90        100
DWQPPFAVEV DNFRFTPRIQ RLNELEAQTR VKLNYLDQIA KFWEIQGSSL 
       110        120        130        140        150
KIPNVERKIL DLYSLNKIVM EEGGYEAICK DRRWARVAQR LNYPSGKNIG 
       160        170        180        190        200
SLLRSHYERI IYPYEIFQSG ANLVQCNTDP FDSEERDKEY KPHSIPLRQS 
       210        220        230        240        250
VQPSKFSCYS RRGKRLQPEP EPTEEDIEKN PELKKLQIYG AGPKMIGLGL 
       260        270        280        290        300
KAKEKTLRKK DSKQPDKEEV TCPATIVVKG EASEFGKVTS AFSDKNLNHS 
       310        320        330        340        350
FEPCMKMTMQ LRNNHSSTQF MNSYVCRICS RGDEVDKFLL CDGCSDNYHI 
       360        370        380        390        400
FCLLPPLSEV PKGVWRCPKC ILAECKSPPE AFGFEQATQE YTLQSFGEMA 
       410        420        430        440        450
DSFKADYFNM PVHMVPTEVV EKEFWRLVSS IEEDVTVEYG ADIHSKEFGS 
       460        470        480        490        500
GFPVNNSKWD LSPEEKEYAA CGWNLNVMPV LDQSVLCHIN ADISGMKVPW 
       510        520        530        540        550
LYVGMVFSAF CWHIEDHWSY SINYLHWGEP KTWYGVPSLA AEHLEDVMKR 
       560        570        580        590        600
LTPELFDSQP DLLHQLVTLM NPNTLMSHGV PVVRTNQCAG EFVITFPRAY 
       610        620        630        640        650
HSGFNQGYNF AEAVNFCTAD WLPVGRQCIE HYRRLRRYCV FSHEELICKM 
       660        670        680        690 
AAFPEKLDLN LAVAVHKEMF IMVQEERRLR KTLLEKLSLQ A

Note: May be produced at very low levels due to a premature stop codon in the mRNA, leading to nonsense-mediated mRNA decay.Curated

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Length:691

Mass (Da):79,525

Checksum:ⁱ40681B920A8B54FE

Computationally mapped potential isoform sequencesⁱ

There are 2 potential isoforms mapped to this entry.BLAST Align Show all Add to basket

Entry	Entry name	Protein names	Gene names	Length	Annotation

Q8BQM3	Q8BQM3_MOUSE	[Histone H3]-trimethyl-L-lysine(4) ... [Histone H3]-trimethyl-L-lysine(4) demethylase, EC 1.14.11.67	Kdm5d Jarid1d	476	Annotation score:
A0A087WR43	A0A087WR43_MOUSE	Lysine-specific demethylase 5D Lysine-specific demethylase 5D	Kdm5d	271	Annotation score:

Experimental Info

Feature key	Position(s)	DescriptionActions	Length
Sequence conflictⁱ	160 – 162	IIY → SFT in CAA82760 (PubMed:7524912).Curated	3
Sequence conflictⁱ	167	F → S in CAA82760 (PubMed:7524912).Curated	1
Sequence conflictⁱ	215	R → K in CAA82760 (PubMed:7524912).Curated	1

Alternative sequence

Feature key	Position(s)	DescriptionActions	Length
Alternative sequenceⁱVSP_026412	1 – 398	Missing in isoform 2. 1 PublicationAdd BLAST	398
Alternative sequenceⁱVSP_026413	583 – 586	VRTN → SIWK in isoform 3. 1 Publication	4
Alternative sequenceⁱVSP_026414	587 – 1548	Missing in isoform 3. 1 PublicationAdd BLAST	962
Alternative sequenceⁱVSP_026415	687 – 691	GITEA → LSLQA in isoform 4. 1 Publication	5
Alternative sequenceⁱVSP_026416	692 – 1548	Missing in isoform 4. 1 PublicationAdd BLAST	857

Sequence databases

Select the link destinations: EMBLⁱ GenBankⁱ DDBJⁱ Links Updated	AF127244 mRNA Translation: AAD53048.1 AK140971 mRNA Translation: BAE24534.1 BC059077 mRNA Translation: AAH59077.1 Z29652 mRNA Translation: CAA82760.1
The Consensus CDS (CCDS) project More...CCDSⁱ	CCDS30541.1 [Q62240-1]
PIRⁱ	I48776
NCBI Reference Sequences More...RefSeqⁱ	NP_035549.1, NM_011419.3 [Q62240-1]

Genome annotation databases

Ensemblⁱ	ENSMUST00000055032; ENSMUSP00000061095; ENSMUSG00000056673 [Q62240-1] ENSMUST00000186696; ENSMUSP00000140663; ENSMUSG00000056673 [Q62240-4]
GeneIDⁱ	20592
KEGGⁱ	mmu:20592
UCSC genome browser More...UCSCⁱ	uc009uyz.1, mouse [Q62240-3] uc009uzb.1, mouse [Q62240-1]

Keywords - Coding sequence diversityⁱ

Alternative splicing

Similar proteinsⁱ

100% Identity
90% Identity
50% Identity

Protein	Similar proteins		Species	Score	Length	Source
Q62240	Isoform 2 of Lysine-specific demethylase 5D		MOUSE		1150	UniRef100_Q62240
SmcY protein (Fragment)		eastern European house mouse		229
SmcY protein (Fragment)		MUSMM		229
SmcY protein (Fragment)		MUSMC		229
SmcY protein (Fragment)		western European house mouse		229
+2

Protein	Similar proteins		Species	Score	Length	Source
Q62240	Isoform 2 of Lysine-specific demethylase 5D		MOUSE		1150	UniRef90_Q62240
SmcY protein (Fragment)		eastern European house mouse		229
SmcY protein (Fragment)		MUSMM		229
SmcY protein (Fragment)		MUSMC		229
SmcY protein (Fragment)		western European house mouse		229
+25
Q62240-3	Isoform 4 of Lysine-specific demethylase 5D		MOUSE		691	UniRef90_Q62240-4
[Histone H3]-trimethyl-L-lysine(4) demethylase		RAT		701
+1

Protein	Similar proteins		Species	Score	Length	Source
Q62240	Isoform 2 of Lysine-specific demethylase 5D		MOUSE		1150	UniRef50_Q62240
SmcY protein (Fragment)		eastern European house mouse		229
SmcY protein (Fragment)		MUSMM		229
SmcY protein (Fragment)		MUSMC		229
SmcY protein (Fragment)		western European house mouse		229
+65
Q62240-3	Isoform 4 of Lysine-specific demethylase 5D		MOUSE		691	UniRef50_Q62240-4
[Histone H3]-trimethyl-L-lysine(4) demethylase		RAT		701
[Histone H3]-trimethyl-L-lysine(4) demethylase		PEDHC		796
+1

Cross-referencesⁱ

Sequence databases

Select the link destinations: EMBLⁱ GenBankⁱ DDBJⁱ Links Updated	AF127244 mRNA Translation: AAD53048.1 AK140971 mRNA Translation: BAE24534.1 BC059077 mRNA Translation: AAH59077.1 Z29652 mRNA Translation: CAA82760.1
CCDSⁱ	CCDS30541.1 [Q62240-1]
PIRⁱ	I48776
RefSeqⁱ	NP_035549.1, NM_011419.3 [Q62240-1]

3D structure databases

SMRⁱ	Q62240
ModBaseⁱ	Search...

Protein-protein interaction databases

BioGRIDⁱ	203342, 5 interactors
STRINGⁱ	10090.ENSMUSP00000061095

PTM databases

iPTMnetⁱ	Q62240
PhosphoSitePlusⁱ	Q62240

Proteomic databases

EPDⁱ	Q62240
PaxDbⁱ	Q62240
PeptideAtlasⁱ	Q62240
PRIDEⁱ	Q62240

Protocols and materials databases

Antibodypediaⁱ	21879, 43 antibodies

Antibodypediaⁱ

21879, 43 antibodies

Genome annotation databases

Ensemblⁱ	ENSMUST00000055032; ENSMUSP00000061095; ENSMUSG00000056673 [Q62240-1] ENSMUST00000186696; ENSMUSP00000140663; ENSMUSG00000056673 [Q62240-4]
GeneIDⁱ	20592
KEGGⁱ	mmu:20592
UCSCⁱ	uc009uyz.1, mouse [Q62240-3] uc009uzb.1, mouse [Q62240-1]

Organism-specific databases

CTDⁱ	8284
MGIⁱ	MGI:99780, Kdm5d

Phylogenomic databases

eggNOGⁱ	KOG1246, Eukaryota
GeneTreeⁱ	ENSGT00940000161236
HOGENOMⁱ	CLU_000991_2_2_1
InParanoidⁱ	Q62240
OMAⁱ	CECPPEN
OrthoDBⁱ	664180at2759
PhylomeDBⁱ	Q62240
TreeFamⁱ	TF106476

Miscellaneous databases

BioGRID-ORCSⁱ	20592, 0 hits in 19 CRISPR screens
ChiTaRSⁱ	Kdm5d, mouse
Protein Ontology More...PROⁱ	PR:Q62240
RNActⁱ	Q62240, protein
SOURCEⁱ	Search...

Gene expression databases

Bgeeⁱ	ENSMUSG00000056673, Expressed in undifferentiated genital tubercle and 240 other tissues
ExpressionAtlasⁱ	Q62240, baseline and differential
Genevisibleⁱ	Q62240, MM

Family and domain databases

Gene3Dⁱ	1.10.150.60, 1 hit 3.30.40.10, 1 hit
InterProⁱ	View protein in InterPro IPR001606, ARID_dom IPR036431, ARID_dom_sf IPR003347, JmjC_dom IPR003349, JmjN IPR013637, Lys_sp_deMease-like_dom IPR019786, Zinc_finger_PHD-type_CS IPR004198, Znf_C5HC2 IPR011011, Znf_FYVE_PHD IPR001965, Znf_PHD IPR019787, Znf_PHD-finger IPR013083, Znf_RING/FYVE/PHD
Pfamⁱ	View protein in Pfam PF01388, ARID, 1 hit PF02373, JmjC, 1 hit PF02375, JmjN, 1 hit PF00628, PHD, 1 hit PF08429, PLU-1, 1 hit PF02928, zf-C5HC2, 1 hit
SMARTⁱ	View protein in SMART SM00501, BRIGHT, 1 hit SM00558, JmjC, 1 hit SM00545, JmjN, 1 hit SM00249, PHD, 2 hits
SUPFAMⁱ	SSF46774, SSF46774, 1 hit SSF57903, SSF57903, 2 hits
PROSITEⁱ	View protein in PROSITE PS51011, ARID, 1 hit PS51184, JMJC, 1 hit PS51183, JMJN, 1 hit PS01359, ZF_PHD_1, 2 hits PS50016, ZF_PHD_2, 1 hit
ProtoNetⁱ	Search...
MobiDBⁱ	Search...

Entry informationⁱ

Entry nameⁱ	KDM5D_MOUSE
Accessionⁱ	Q62240Primary (citable) accession number: Q62240 Secondary accession number(s): Q3US03 , Q6PCX3, Q9QVR9, Q9R040
Entry historyⁱ	Integrated into UniProtKB/Swiss-Prot:	October 24, 2001
	Last sequence update:	October 24, 2001
	Last modified:	December 2, 2020
	This is version 162 of the entry and version 2 of the sequence. See complete history.
Entry statusⁱ	Reviewed (UniProtKB/Swiss-Prot)
Annotation program	Chordata Protein Annotation Program

Miscellaneousⁱ

Keywords - Technical termⁱ

Reference proteome

Documents

MGD cross-references
Mouse Genome Database (MGD) cross-references in UniProtKB/Swiss-Prot
SIMILARITY comments
Index of protein domains and families

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UniProtKB - Q62240 (KDM5D_MOUSE)

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Lysine-specific demethylase 5D

Kdm5d

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<p>This section provides any useful information about the protein, mostly biological knowledge.<p><a href='/help/function_section' target='_top'>More...</a></p>Functioni

Miscellaneous

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Keywords - PTMi

Proteomic databases

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<p>This section provides information on the tertiary and secondary structure of a protein.<p><a href='/help/structure_section' target='_top'>More...</a></p>Structurei

3D structure databases

<p>This section provides information on sequence similarities with other proteins and the domain(s) present in a protein.<p><a href='/help/family_and_domains_section' target='_top'>More...</a></p>Family & Domainsi

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<p>This subsection of the 'Family and domains' section provides information about the sequence similarity with other proteins.<p><a href='/help/sequence_similarities' target='_top'>More...</a></p>Sequence similaritiesi

Zinc finger

Keywords - Domaini

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Keywords - Coding sequence diversityi

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<p>This section contains any relevant information that doesn't fit in any other defined sections<p><a href='/help/miscellaneous_section' target='_top'>More...</a></p>Miscellaneousi

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Functionⁱ

Catalytic activityⁱ

GO - Molecular functionⁱ

GO - Biological processⁱ

Names & Taxonomyⁱ

Subcellular locationⁱ

Keywords - Cellular componentⁱ

PTM / Processingⁱ

Keywords - PTMⁱ

Expressionⁱ

Interactionⁱ

GO - Molecular functionⁱ

Structureⁱ

Family & Domainsⁱ

Sequence similaritiesⁱ

Keywords - Domainⁱ

Keywords - Coding sequence diversityⁱ

Cross-referencesⁱ

Entry informationⁱ

Miscellaneousⁱ

Keywords - Technical termⁱ