LOCUS       NP_001264106            1690 aa            linear   ROD 29-MAR-2024
DEFINITION  lysine-specific demethylase 5A isoform 1 [Rattus norvegicus].
ACCESSION   NP_001264106 XP_002726529 XP_002729471
VERSION     NP_001264106.1
DBSOURCE    REFSEQ: accession NM_001277177.1
KEYWORDS    RefSeq; RefSeq Select.
SOURCE      Rattus norvegicus (Norway rat)
  ORGANISM  Rattus norvegicus
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha;
            Muroidea; Muridae; Murinae; Rattus.
REFERENCE   1  (residues 1 to 1690)
  AUTHORS   Zhou,Z., Zhang,X., Yi,G., Zhang,Y., Zhang,J., Tan,C., Wan,B.,
            Li,Y., Lu,H. and Lu,W.
  TITLE     LINC00092 derived from follicular fluid alleviated the symptoms of
            PCOS through inactivation of phosphatase and tensin homolog by
            recruiting KDM5A
  JOURNAL   Reprod Biol 23 (2), 100764 (2023)
   PUBMED   37084543
  REMARK    GeneRIF: LINC00092 derived from follicular fluid alleviated the
            symptoms of PCOS through inactivation of phosphatase and tensin
            homolog by recruiting KDM5A.
REFERENCE   2  (residues 1 to 1690)
  AUTHORS   Kong,S.Y., Kim,W., Lee,H.R. and Kim,H.J.
  TITLE     The histone demethylase KDM5A is required for the repression of
            astrocytogenesis and regulated by the translational machinery in
            neural progenitor cells
  JOURNAL   FASEB J 32 (2), 1108-1119 (2018)
   PUBMED   29212818
  REMARK    GeneRIF: These data suggest that KDM5A is a key regulator that
            maintains neural progenitor cells in an undifferentiated state by
            repressing astrocytogenesis and that its expression is
            translationally controlled during astrocyte differentiation.
REFERENCE   3  (residues 1 to 1690)
  AUTHORS   Labadie,S.S., Dragovich,P.S., Cummings,R.T., Deshmukh,G.,
            Gustafson,A., Han,N., Harmange,J.C., Kiefer,J.R., Li,Y., Liang,J.,
            Liederer,B.M., Liu,Y., Manieri,W., Mao,W., Murray,L., Ortwine,D.F.,
            Trojer,P., VanderPorten,E., Vinogradova,M. and Wen,L.
  TITLE     Design and evaluation of 1,7-naphthyridones as novel KDM5
            inhibitors
  JOURNAL   Bioorg Med Chem Lett 26 (18), 4492-4496 (2016)
   PUBMED   27499454
REFERENCE   4  (residues 1 to 1690)
  AUTHORS   Qi,L., Zhu,F., Li,S.H., Si,L.B., Hu,L.K. and Tian,H.
  TITLE     Retinoblastoma binding protein 2 (RBP2) promotes
            HIF-1alpha-VEGF-induced angiogenesis of non-small cell lung cancer
            via the Akt pathway
  JOURNAL   PLoS One 9 (8), e106032 (2014)
   PUBMED   25162518
  REMARK    Publication Status: Online-Only
REFERENCE   5  (residues 1 to 1690)
  AUTHORS   Nishio,H., Hayashi,Y., Moritoki,Y., Kamisawa,H., Mizuno,K.,
            Kojima,Y. and Kohri,K.
  TITLE     Distinctive changes in histone H3K4 modification mediated via Kdm5a
            expression in spermatogonial stem cells of cryptorchid testes
  JOURNAL   J Urol 191 (5 Suppl), 1564-1572 (2014)
   PUBMED   24679876
  REMARK    GeneRIF: Kdm5a expression was significantly higher in undescended
            testes.
REFERENCE   6  (residues 1 to 1690)
  AUTHORS   Tu,S., Teng,Y.C., Yuan,C., Wu,Y.T., Chan,M.Y., Cheng,A.N.,
            Lin,P.H., Juan,L.J. and Tsai,M.D.
  TITLE     The ARID domain of the H3K4 demethylase RBP2 binds to a DNA CCGCCC
            motif
  JOURNAL   Nat Struct Mol Biol 15 (4), 419-421 (2008)
   PUBMED   18270511
REFERENCE   7  (residues 1 to 1690)
  AUTHORS   Patsialou,A., Wilsker,D. and Moran,E.
  TITLE     DNA-binding properties of ARID family proteins
  JOURNAL   Nucleic Acids Res 33 (1), 66-80 (2005)
   PUBMED   15640446
  REMARK    Publication Status: Online-Only
REFERENCE   8  (residues 1 to 1690)
  AUTHORS   Florea,L., Di Francesco,V., Miller,J., Turner,R., Yao,A.,
            Harris,M., Walenz,B., Mobarry,C., Merkulov,G.V., Charlab,R.,
            Dew,I., Deng,Z., Istrail,S., Li,P. and Sutton,G.
  TITLE     Gene and alternative splicing annotation with AIR
  JOURNAL   Genome Res 15 (1), 54-66 (2005)
   PUBMED   15632090
REFERENCE   9  (residues 1 to 1690)
  AUTHORS   Sandrock,B. and Egly,J.M.
  TITLE     A yeast four-hybrid system identifies Cdk-activating kinase as a
            regulator of the XPD helicase, a subunit of transcription factor
            IIH
  JOURNAL   J Biol Chem 276 (38), 35328-35333 (2001)
   PUBMED   11445587
REFERENCE   10 (residues 1 to 1690)
  AUTHORS   Chan,S.W. and Hong,W.
  TITLE     Retinoblastoma-binding protein 2 (Rbp2) potentiates nuclear hormone
            receptor-mediated transcription
  JOURNAL   J Biol Chem 276 (30), 28402-28412 (2001)
   PUBMED   11358960
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            JAXUCZ010000004.1.
            
            On or before Mar 17, 2013 this sequence version replaced
            XP_002729471.2, XP_002726529.2.
            
            Transcript Variant: This variant (1) represents the longer
            transcript and encodes the longer isoform (1).
            
            Sequence Note: The RefSeq transcript and protein were derived from
            genomic sequence to make the sequence consistent with the reference
            genome assembly. The genomic coordinates used for the transcript
            record were based on alignments. There are no full-length
            transcripts supporting this RefSeq in rat and it is unknown if this
            exon combination exists in rat; however, it is predicted based on
            partial transcript alignments and on full-length transcript support
            from the human homolog (GeneID 5927, AB209999.1).
            
            Publication Note:  This RefSeq record includes a subset of the
            publications that are available for this gene. Please see the Gene
            record to access additional publications.
            
            ##Evidence-Data-START##
            RNAseq introns :: single sample supports all introns SAMEA5760383,
                              SAMEA5760386 [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            inferred exon combination :: based on alignments, homology
            RefSeq Select criteria    :: based on conservation, expression,
                                         longest protein
            ##RefSeq-Attributes-END##
FEATURES             Location/Qualifiers
     source          1..1690
                     /organism="Rattus norvegicus"
                     /strain="BN"
                     /db_xref="taxon:10116"
                     /chromosome="4"
                     /map="4q42"
     Protein         1..1690
                     /product="lysine-specific demethylase 5A isoform 1"
                     /EC_number="1.14.11.67"
                     /note="lysine-specific demethylase 5A; jumonji, AT rich
                     interactive domain 1A (Rbp2 like); lysine (K)-specific
                     demethylase 5A"
                     /calculated_mol_wt=191897
     Region          18..59
                     /region_name="JmjN"
                     /note="Small domain found in the jumonji family of
                     transcription factors; smart00545"
                     /db_xref="CDD:128818"
     Region          84..175
                     /region_name="ARID_KDM5A"
                     /note="ARID/BRIGHT DNA binding domain of lysine-specific
                     demethylase 5A (KDM5A); cd16873"
                     /db_xref="CDD:350637"
     Site            order(106..112,137,139..140,143,153,155..157,159)
                     /site_type="other"
                     /note="putative DNA binding site [nucleotide binding]"
                     /db_xref="CDD:350637"
     Region          295..343
                     /region_name="PHD1_KDM5A"
                     /note="PHD finger 1 found in Lysine-specific demethylase
                     5A (KDM5A); cd15602"
                     /db_xref="CDD:277075"
     Site            order(295,307..311,315,335)
                     /site_type="other"
                     /note="putative histone H3 binding site [polypeptide
                     binding]"
                     /db_xref="CDD:277075"
     Region          470..586
                     /region_name="JmjC"
                     /note="JmjC domain, hydroxylase; pfam02373"
                     /db_xref="CDD:396791"
     Region          676..728
                     /region_name="zf-C5HC2"
                     /note="C5HC2 zinc finger; pfam02928"
                     /db_xref="CDD:460750"
     Region          741..1072
                     /region_name="PLU-1"
                     /note="PLU-1-like protein; pfam08429"
                     /db_xref="CDD:462475"
     Region          1163..1215
                     /region_name="PHD2_KDM5A"
                     /note="PHD finger 2 found in Lysine-specific demethylase
                     5A (KDM5A); cd15606"
                     /db_xref="CDD:277079"
     Site            order(1163,1173..1177,1181,1210)
                     /site_type="other"
                     /note="putative histone H3 binding site [polypeptide
                     binding]"
                     /db_xref="CDD:277079"
     Region          1608..1659
                     /region_name="PHD3_KDM5A"
                     /note="PHD finger 3 found in Lysine-specific demethylase
                     5A (KDM5A); cd15686"
                     /db_xref="CDD:277156"
     Site            order(1624..1629,1633,1635,1638)
                     /site_type="other"
                     /note="H3K4me3 binding site [polypeptide binding]"
                     /db_xref="CDD:277156"
     CDS             1..1690
                     /gene="Kdm5a"
                     /gene_synonym="Jarid1a"
                     /coded_by="NM_001277177.1:409..5481"
                     /note="isoform 1 is encoded by transcript variant 1"
                     /db_xref="GeneID:312678"
                     /db_xref="RGD:1305429"
ORIGIN      
        1 magvgpggya aefvpppecp vfepsweeft dplsfigrir plaektgick irppkdwqpp
       61 facevktfrf tprvqrlnel eamtrvrldf ldqlakfwel qgstlkipvv erkildlyal
      121 skivaskggf eivtkekkws kvgsrlgylp gkgtgsllks hyerilypye lfqsgvslmg
      181 vqmpdldlke kveaevlstd iqpspergtr mnippkrtrr vksqsdsgev nrntelkklq
      241 ifgagpkvvg lavgakdked evtrrrkvtn rsdafnmqmr qrkgtlsvnf vdlyvcmfcg
      301 rgnnedklll cdgcddsyht fcllpplpdv pkgdwrcpkc vaeecnkpre afgfeqaire
      361 ytlqsfgema dnfksdyfnm pvhmvptelv ekefwrlvss ieedviveyg adisskdfgs
      421 gfpikdgqrk mlpeeeeyal sgwnlnnmpv leqsvlahin vdisgmkvpw lyvgmcfssf
      481 cwhiedhwsy sinylhwgep ktwygvpsha aeqleevmre lapelfesqp dllhqlvtim
      541 npnvlmehgv pvyrtnqcag efvvtfpray hsgfnqgynf aeavnfctad wlpigrqcvn
      601 hyrrlrrhcv fsheelifkm aadpecldvg laamvckelt lmteeetrlr esvvqmgvvm
      661 seeevfelvp dderqcsacr ttcflsaltc scnperlvcl yhptdlcscp mqnkclryry
      721 pledlpslly gvkvraqsyd twvnrvteal sasfnhkkdl ielrvmleda edrkypendl
      781 frklrdavke aetcgsvaql llskkqkhrq ssdsgktrtk ltveelkafv qqlvslpcvi
      841 sqtrqvknll ddveefhera qeammdetpd ssklqvlidm gsslyvelpe lprlkqelqq
      901 arwldevrlt lsdpqqvtld vmkklidsgv glaphhavek amaelqellt vserweekak
      961 vclqarprhs manlenivne aknipaflpn vlslkealqk arewtakvea iqsgsnyayl
     1021 eqleslsakg rpipvrldal pqvesqvaaa rawrertgrt flkknsshtl lqvlsprtdi
     1081 gvygsgknrr kkvkeiieke kekdldlepl sdleegleet rdaamvvavf kereqkeiea
     1141 mhslraanla kmtivdriee vkfcicrkta sgfmlqcelc kdwfhngcvp lpksgsqkkg
     1201 sswqakdvkf lcplcmrsrr prletilsll vslqklpvrl pegealqclt eramswqdra
     1261 rqalatdels salaklsvls qrmveqaare ktekiisael qkaaanpdlq ghlpsfqqsa
     1321 fnrvvssvss sphqamdydd eetdsdedir etygydmkdt asvkssssle pnlfcdeeip
     1381 ikseevvthm wtapsfcaeh ayssaskscs qgsstprkqp rksplvprsl eppvlelspg
     1441 akaqleelmm vgdllevsld etqhiwrilq athppsedrf lhimeddsve ekplkmkgkd
     1501 ssekkrkrkl ekveqffgeg kqktkelkki dkpkkkklkl nvdkskelnk lakklakeee
     1561 rkkkkekaaa akvelakest ekkrerkvld ipskydwsga eesddenavc aaqncqrpck
     1621 dkvdwvqcdg gcdewfhqvc vgvspemaen edyicincak kqgpdspgha ppppfimsyk
     1681 lpmedlkets
//
