ID DME_ARATH Reviewed; 1987 AA. AC Q8LK56; Q1WEY5; Q84TL4; Q9LZ67; Q9LZ68; Q9LZ69; DT 16-MAY-2003, integrated into UniProtKB/Swiss-Prot. DT 13-JUN-2006, sequence version 2. DT 27-MAR-2024, entry version 154. DE RecName: Full=Transcriptional activator DEMETER; DE EC=3.2.2.-; DE AltName: Full=DNA glycosylase-related protein DME; GN Name=DME; OrderedLocusNames=At5g04560/At5g04570/At5g04580; GN ORFNames=T32M21.160/T32M21.170/T32M21.180; OS Arabidopsis thaliana (Mouse-ear cress). OC Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta; OC Spermatophyta; Magnoliopsida; eudicotyledons; Gunneridae; Pentapetalae; OC rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis. OX NCBI_TaxID=3702; RN [1] RP NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 1), FUNCTION, AND CHARACTERIZATION. RC STRAIN=cv. Columbia; TISSUE=Flower; RX PubMed=12150995; DOI=10.1016/s0092-8674(02)00807-3; RA Choi Y., Gehring M., Johnson L., Hannon M., Harada J.J., Goldberg R.B., RA Jacobsen S.E., Fischer R.L.; RT "DEMETER, a DNA glycosylase domain protein, is required for endosperm gene RT imprinting and seed viability in Arabidopsis."; RL Cell 110:33-42(2002). RN [2] RP NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 3), AND FUNCTION. RC STRAIN=cv. Columbia; RX PubMed=16624880; DOI=10.1073/pnas.0601109103; RA Morales-Ruiz T., Ortega-Galisteo A.P., Ponferrada-Marin M.I., RA Martinez-Macias M.I., Ariza R.R., Roldan-Arjona T.; RT "DEMETER and REPRESSOR OF SILENCING 1 encode 5-methylcytosine DNA RT glycosylases."; RL Proc. Natl. Acad. Sci. U.S.A. 103:6853-6858(2006). RN [3] RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. RC STRAIN=cv. Columbia; RX PubMed=11130714; DOI=10.1038/35048507; RA Tabata S., Kaneko T., Nakamura Y., Kotani H., Kato T., Asamizu E., RA Miyajima N., Sasamoto S., Kimura T., Hosouchi T., Kawashima K., Kohara M., RA Matsumoto M., Matsuno A., Muraki A., Nakayama S., Nakazaki N., Naruo K., RA Okumura S., Shinpo S., Takeuchi C., Wada T., Watanabe A., Yamada M., RA Yasuda M., Sato S., de la Bastide M., Huang E., Spiegel L., Gnoj L., RA O'Shaughnessy A., Preston R., Habermann K., Murray J., Johnson D., RA Rohlfing T., Nelson J., Stoneking T., Pepin K., Spieth J., Sekhon M., RA Armstrong J., Becker M., Belter E., Cordum H., Cordes M., Courtney L., RA Courtney W., Dante M., Du H., Edwards J., Fryman J., Haakensen B., RA Lamar E., Latreille P., Leonard S., Meyer R., Mulvaney E., Ozersky P., RA Riley A., Strowmatt C., Wagner-McPherson C., Wollam A., Yoakum M., Bell M., RA Dedhia N., Parnell L., Shah R., Rodriguez M., Hoon See L., Vil D., RA Baker J., Kirchoff K., Toth K., King L., Bahret A., Miller B., Marra M.A., RA Martienssen R., McCombie W.R., Wilson R.K., Murphy G., Bancroft I., RA Volckaert G., Wambutt R., Duesterhoeft A., Stiekema W., Pohl T., RA Entian K.-D., Terryn N., Hartley N., Bent E., Johnson S., Langham S.-A., RA McCullagh B., Robben J., Grymonprez B., Zimmermann W., Ramsperger U., RA Wedler H., Balke K., Wedler E., Peters S., van Staveren M., Dirkse W., RA Mooijman P., Klein Lankhorst R., Weitzenegger T., Bothe G., Rose M., RA Hauf J., Berneiser S., Hempel S., Feldpausch M., Lamberth S., RA Villarroel R., Gielen J., Ardiles W., Bents O., Lemcke K., Kolesov G., RA Mayer K.F.X., Rudd S., Schoof H., Schueller C., Zaccaria P., Mewes H.-W., RA Bevan M., Fransz P.F.; RT "Sequence and analysis of chromosome 5 of the plant Arabidopsis thaliana."; RL Nature 408:823-826(2000). RN [4] RP GENOME REANNOTATION. RC STRAIN=cv. Columbia; RX PubMed=27862469; DOI=10.1111/tpj.13415; RA Cheng C.Y., Krishnakumar V., Chan A.P., Thibaud-Nissen F., Schobel S., RA Town C.D.; RT "Araport11: a complete reannotation of the Arabidopsis thaliana reference RT genome."; RL Plant J. 89:789-804(2017). RN [5] RP NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 2). RC STRAIN=cv. Columbia; RX PubMed=11910074; DOI=10.1126/science.1071006; RA Seki M., Narusaka M., Kamiya A., Ishida J., Satou M., Sakurai T., RA Nakajima M., Enju A., Akiyama K., Oono Y., Muramatsu M., Hayashizaki Y., RA Kawai J., Carninci P., Itoh M., Ishii Y., Arakawa T., Shibata K., RA Shinagawa A., Shinozaki K.; RT "Functional annotation of a full-length Arabidopsis cDNA collection."; RL Science 296:141-145(2002). RN [6] RP NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 2). RC STRAIN=cv. Columbia; RX PubMed=14593172; DOI=10.1126/science.1088305; RA Yamada K., Lim J., Dale J.M., Chen H., Shinn P., Palm C.J., Southwick A.M., RA Wu H.C., Kim C.J., Nguyen M., Pham P.K., Cheuk R.F., Karlin-Newmann G., RA Liu S.X., Lam B., Sakano H., Wu T., Yu G., Miranda M., Quach H.L., RA Tripp M., Chang C.H., Lee J.M., Toriumi M.J., Chan M.M., Tang C.C., RA Onodera C.S., Deng J.M., Akiyama K., Ansari Y., Arakawa T., Banh J., RA Banno F., Bowser L., Brooks S.Y., Carninci P., Chao Q., Choy N., Enju A., RA Goldsmith A.D., Gurjal M., Hansen N.F., Hayashizaki Y., Johnson-Hopson C., RA Hsuan V.W., Iida K., Karnes M., Khan S., Koesema E., Ishida J., Jiang P.X., RA Jones T., Kawai J., Kamiya A., Meyers C., Nakajima M., Narusaka M., RA Seki M., Sakurai T., Satou M., Tamse R., Vaysberg M., Wallender E.K., RA Wong C., Yamamura Y., Yuan S., Shinozaki K., Davis R.W., Theologis A., RA Ecker J.R.; RT "Empirical analysis of transcriptional activity in the Arabidopsis RT genome."; RL Science 302:842-846(2003). RN [7] RP FUNCTION, AND MUTAGENESIS OF ASP-1562. RX PubMed=15128940; DOI=10.1073/pnas.0402328101; RA Choi Y., Harada J.J., Goldberg R.B., Fischer R.L.; RT "An invariant aspartic acid in the DNA glycosylase domain of DEMETER is RT necessary for transcriptional activation of the imprinted MEDEA gene."; RL Proc. Natl. Acad. Sci. U.S.A. 101:7481-7486(2004). CC -!- FUNCTION: Transcriptional activator involved in gene imprinting. CC Catalyzes the release of 5-methylcytosine (5-meC) from DNA by a CC glycosylase/lyase mechanism. Allows the expression of the maternal copy CC of the imprinted MEA gene before fertilization, possibly by CC antagonizing or suppressing DNA methylation on target promoter. CC Probably acts by nicking the MEA promoter. Required for stable CC reproducible patterns of floral and vegetative development. CC {ECO:0000269|PubMed:12150995, ECO:0000269|PubMed:15128940, CC ECO:0000269|PubMed:16624880}. CC -!- COFACTOR: CC Name=[4Fe-4S] cluster; Xref=ChEBI:CHEBI:49883; Evidence={ECO:0000250}; CC Note=Binds 1 [4Fe-4S] cluster. The cluster does not appear to play a CC role in catalysis, but is probably involved in the proper positioning CC of the enzyme along the DNA strand. {ECO:0000250}; CC -!- SUBCELLULAR LOCATION: Nucleus. CC -!- ALTERNATIVE PRODUCTS: CC Event=Alternative splicing; Named isoforms=3; CC Name=3; CC IsoId=Q8LK56-3; Sequence=Displayed; CC Name=1; CC IsoId=Q8LK56-1; Sequence=VSP_019283; CC Name=2; CC IsoId=Q8LK56-2; Sequence=VSP_007455; CC -!- TISSUE SPECIFICITY: Mainly expressed in immature flower buds, then CC decreases as the flower matures. Expressed in the ovule carpels, but CC not expressed in pollen stamens. Expressed in developing and mature CC ovules (stages 12-14), then strongly decreases after fertilization. CC -!- DEVELOPMENTAL STAGE: Maternally expressed. Expressed primarily in the CC central cell of gametophyte before fertilization. Not expressed in CC endosperm and embryo after fertilization. CC -!- DOMAIN: The DEMETER domain, which is present in proteins of the CC subfamily, is related to the J-domain, but lacks some important CC conserved residues. CC -!- MISCELLANEOUS: Although strongly related to DNA glycosylase proteins, CC it differs from these proteins because of its large size and its unique CC N-terminal basic domain. The DNA repair function has not been proved CC and may not exist. CC -!- SIMILARITY: Belongs to the DNA glycosylase family. DEMETER subfamily. CC {ECO:0000305}. CC -!- SEQUENCE CAUTION: CC Sequence=CAB85562.1; Type=Erroneous gene model prediction; Note=Was originally thought to correspond to three different genes At5g04560, At5g04570 and At5g04580.; Evidence={ECO:0000305}; CC Sequence=CAB85563.1; Type=Erroneous gene model prediction; Note=Was originally thought to correspond to three different genes At5g04560, At5g04570 and At5g04580.; Evidence={ECO:0000305}; CC Sequence=CAB85564.1; Type=Erroneous gene model prediction; Note=Was originally thought to correspond to three different genes At5g04560, At5g04570 and At5g04580.; Evidence={ECO:0000305}; CC --------------------------------------------------------------------------- CC Copyrighted by the UniProt Consortium, see https://www.uniprot.org/terms CC Distributed under the Creative Commons Attribution (CC BY 4.0) License CC --------------------------------------------------------------------------- DR EMBL; AF521596; AAM77215.1; -; mRNA. DR EMBL; DQ335243; ABC61677.1; -; mRNA. DR EMBL; AL162875; CAB85562.1; ALT_SEQ; Genomic_DNA. DR EMBL; AL162875; CAB85563.1; ALT_SEQ; Genomic_DNA. DR EMBL; AL162875; CAB85564.1; ALT_SEQ; Genomic_DNA. DR EMBL; CP002688; AED90760.1; -; Genomic_DNA. DR EMBL; CP002688; AED90761.1; -; Genomic_DNA. DR EMBL; CP002688; ANM69949.1; -; Genomic_DNA. DR EMBL; AK117994; BAC42629.1; -; mRNA. DR EMBL; BT005357; AAO63421.1; -; mRNA. DR PIR; T48452; T48452. DR PIR; T48453; T48453. DR PIR; T48454; T48454. DR RefSeq; NP_001078527.1; NM_001085058.2. [Q8LK56-3] DR RefSeq; NP_001331593.1; NM_001342781.1. [Q8LK56-1] DR RefSeq; NP_196076.2; NM_120538.2. [Q8LK56-1] DR AlphaFoldDB; Q8LK56; -. DR SMR; Q8LK56; -. DR BioGRID; 15614; 7. DR STRING; 3702.Q8LK56; -. DR PaxDb; 3702-AT5G04560-2; -. DR ProteomicsDB; 222002; -. [Q8LK56-3] DR EnsemblPlants; AT5G04560.1; AT5G04560.1; AT5G04560. [Q8LK56-1] DR EnsemblPlants; AT5G04560.2; AT5G04560.2; AT5G04560. [Q8LK56-3] DR EnsemblPlants; AT5G04560.3; AT5G04560.3; AT5G04560. [Q8LK56-1] DR GeneID; 830335; -. DR Gramene; AT5G04560.1; AT5G04560.1; AT5G04560. [Q8LK56-1] DR Gramene; AT5G04560.2; AT5G04560.2; AT5G04560. [Q8LK56-3] DR Gramene; AT5G04560.3; AT5G04560.3; AT5G04560. [Q8LK56-1] DR KEGG; ath:AT5G04560; -. DR Araport; AT5G04560; -. DR TAIR; AT5G04560; DME. DR eggNOG; ENOG502QQKH; Eukaryota. DR InParanoid; Q8LK56; -. DR OMA; MYLMGTQ; -. DR OrthoDB; 1216739at2759; -. DR PhylomeDB; Q8LK56; -. DR PRO; PR:Q8LK56; -. DR Proteomes; UP000006548; Chromosome 5. DR ExpressionAtlas; Q8LK56; baseline and differential. DR GO; GO:0005634; C:nucleus; ISS:TAIR. DR GO; GO:0043078; C:polar nucleus; IDA:TAIR. DR GO; GO:0051539; F:4 iron, 4 sulfur cluster binding; IEA:UniProtKB-KW. DR GO; GO:0003677; F:DNA binding; IEA:UniProtKB-KW. DR GO; GO:0035514; F:DNA demethylase activity; IEA:InterPro. DR GO; GO:0019104; F:DNA N-glycosylase activity; IDA:TAIR. DR GO; GO:0003906; F:DNA-(apurinic or apyrimidinic site) endonuclease activity; IDA:TAIR. DR GO; GO:0046872; F:metal ion binding; IEA:UniProtKB-KW. DR GO; GO:0032183; F:SUMO binding; IPI:TAIR. DR GO; GO:0006284; P:base-excision repair; IEA:InterPro. DR GO; GO:0080111; P:DNA demethylation; IEA:InterPro. DR GO; GO:0006306; P:DNA methylation; IDA:TAIR. DR GO; GO:0009793; P:embryo development ending in seed dormancy; IMP:TAIR. DR CDD; cd00056; ENDO3c; 1. DR Gene3D; 1.10.1670.10; Helix-hairpin-Helix base-excision DNA repair enzymes (C-terminal); 1. DR InterPro; IPR044811; DME/ROS1. DR InterPro; IPR011257; DNA_glycosylase. DR InterPro; IPR003651; Endonuclease3_FeS-loop_motif. DR InterPro; IPR003265; HhH-GPD_domain. DR InterPro; IPR023170; HhH_base_excis_C. DR InterPro; IPR028924; Perm-CXXC. DR InterPro; IPR028925; RRM_DME. DR PANTHER; PTHR46213; TRANSCRIPTIONAL ACTIVATOR DEMETER; 1. DR PANTHER; PTHR46213:SF31; TRANSCRIPTIONAL ACTIVATOR DEMETER; 1. DR Pfam; PF15629; Perm-CXXC; 1. DR Pfam; PF15628; RRM_DME; 1. DR SMART; SM00478; ENDO3c; 1. DR SMART; SM00525; FES; 1. DR SUPFAM; SSF48150; DNA-glycosylase; 1. DR Genevisible; Q8LK56; AT. PE 1: Evidence at protein level; KW 4Fe-4S; Activator; Alternative splicing; DNA-binding; Hydrolase; Iron; KW Iron-sulfur; Metal-binding; Nucleus; Reference proteome; Transcription; KW Transcription regulation. FT CHAIN 1..1987 FT /note="Transcriptional activator DEMETER" FT /id="PRO_0000102245" FT REGION 246..378 FT /note="Disordered" FT /evidence="ECO:0000256|SAM:MobiDB-lite" FT REGION 392..415 FT /note="Disordered" FT /evidence="ECO:0000256|SAM:MobiDB-lite" FT REGION 793..901 FT /note="Disordered" FT /evidence="ECO:0000256|SAM:MobiDB-lite" FT REGION 955..1054 FT /note="DEMETER" FT REGION 1324..1351 FT /note="Disordered" FT /evidence="ECO:0000256|SAM:MobiDB-lite" FT REGION 1439..1471 FT /note="Disordered" FT /evidence="ECO:0000256|SAM:MobiDB-lite" FT COMPBIAS 258..278 FT /note="Polar residues" FT /evidence="ECO:0000256|SAM:MobiDB-lite" FT COMPBIAS 304..363 FT /note="Basic and acidic residues" FT /evidence="ECO:0000256|SAM:MobiDB-lite" FT COMPBIAS 795..809 FT /note="Basic and acidic residues" FT /evidence="ECO:0000256|SAM:MobiDB-lite" FT COMPBIAS 811..828 FT /note="Polar residues" FT /evidence="ECO:0000256|SAM:MobiDB-lite" FT COMPBIAS 829..843 FT /note="Basic and acidic residues" FT /evidence="ECO:0000256|SAM:MobiDB-lite" FT COMPBIAS 1326..1341 FT /note="Polar residues" FT /evidence="ECO:0000256|SAM:MobiDB-lite" FT COMPBIAS 1448..1471 FT /note="Basic and acidic residues" FT /evidence="ECO:0000256|SAM:MobiDB-lite" FT BINDING 1629 FT /ligand="[4Fe-4S] cluster" FT /ligand_id="ChEBI:CHEBI:49883" FT /evidence="ECO:0000250" FT BINDING 1636 FT /ligand="[4Fe-4S] cluster" FT /ligand_id="ChEBI:CHEBI:49883" FT /evidence="ECO:0000250" FT BINDING 1639 FT /ligand="[4Fe-4S] cluster" FT /ligand_id="ChEBI:CHEBI:49883" FT /evidence="ECO:0000250" FT BINDING 1645 FT /ligand="[4Fe-4S] cluster" FT /ligand_id="ChEBI:CHEBI:49883" FT /evidence="ECO:0000250" FT VAR_SEQ 1..258 FT /note="Missing (in isoform 1)" FT /evidence="ECO:0000303|PubMed:12150995" FT /id="VSP_019283" FT VAR_SEQ 259..1571 FT /note="Missing (in isoform 2)" FT /evidence="ECO:0000303|PubMed:11910074, FT ECO:0000303|PubMed:14593172" FT /id="VSP_007455" FT MUTAGEN 1562 FT /note="D->N: Loss of activity and abnormal MEA imprinting." FT /evidence="ECO:0000269|PubMed:15128940" FT CONFLICT 1679 FT /note="Y -> F (in Ref. 1; AAM77215)" FT /evidence="ECO:0000305" SQ SEQUENCE 1987 AA; 221147 MW; 4035C0D344DCF375 CRC64; MNSRADPGDR YFRVPLENQT QQEFMGSWIP FTPKKPRSSL MVDERVINQD LNGFPGGEFV DRGFCNTGVD HNGVFDHGAH QGVTNLSMMI NSLAGSHAQA WSNSERDLLG RSEVTSPLAP VIRNTTGNVE PVNGNFTSDV GMVNGPFTQS GTSQAGYNEF ELDDLLNPDQ MPFSFTSLLS GGDSLFKVRQ YGPPACNKPL YNLNSPIRRE AVGSVCESSF QYVPSTPSLF RTGEKTGFLE QIVTTTGHEI PEPKSDKSMQ SIMDSSAVNA TEATEQNDGS RQDVLEFDLN KTPQQKPSKR KRKFMPKVVV EGKPKRKPRK PAELPKVVVE GKPKRKPRKA ATQEKVKSKE TGSAKKKNLK ESATKKPANV GDMSNKSPEV TLKSCRKALN FDLENPGDAR QGDSESEIVQ NSSGANSFSE IRDAIGGTNG SFLDSVSQID KTNGLGAMNQ PLEVSMGNQP DKLSTGAKLA RDQQPDLLTR NQQCQFPVAT QNTQFPMENQ QAWLQMKNQL IGFPFGNQQP RMTIRNQQPC LAMGNQQPMY LIGTPRPALV SGNQQLGGPQ GNKRPIFLNH QTCLPAGNQL YGSPTDMHQL VMSTGGQQHG LLIKNQQPGS LIRGQQPCVP LIDQQPATPK GFTHLNQMVA TSMSSPGLRP HSQSQVPTTY LHVESVSRIL NGTTGTCQRS RAPAYDSLQQ DIHQGNKYIL SHEISNGNGC KKALPQNSSL PTPIMAKLEE ARGSKRQYHR AMGQTEKHDL NLAQQIAQSQ DVERHNSSTC VEYLDAAKKT KIQKVVQENL HGMPPEVIEI EDDPTDGARK GKNTASISKG ASKGNSSPVK KTAEKEKCIV PKTPAKKGRA GRKKSVPPPA HASEIQLWQP TPPKTPLSRS KPKGKGRKSI QDSGKARGPS GELLCQDSIA EIIYRMQNLY LGDKEREQEQ NAMVLYKGDG ALVPYESKKR KPRPKVDIDD ETTRIWNLLM GKGDEKEGDE EKDKKKEKWW EEERRVFRGR ADSFIARMHL VQGDRRFSPW KGSVVDSVIG VFLTQNVSDH LSSSAFMSLA ARFPPKLSSS REDERNVRSV VVEDPEGCIL NLNEIPSWQE KVQHPSDMEV SGVDSGSKEQ LRDCSNSGIE RFNFLEKSIQ NLEEEVLSSQ DSFDPAIFQS CGRVGSCSCS KSDAEFPTTR CETKTVSGTS QSVQTGSPNL SDEICLQGNE RPHLYEGSGD VQKQETTNVA QKKPDLEKTM NWKDSVCFGQ PRNDTNWQTT PSSSYEQCAT RQPHVLDIED FGMQGEGLGY SWMSISPRVD RVKNKNVPRR FFRQGGSVPR EFTGQIIPST PHELPGMGLS GSSSAVQEHQ DDTQHNQQDE MNKASHLQKT FLDLLNSSEE CLTRQSSTKQ NITDGCLPRD RTAEDVVDPL SNNSSLQNIL VESNSSNKEQ TAVEYKETNA TILREMKGTL ADGKKPTSQW DSLRKDVEGN EGRQERNKNN MDSIDYEAIR RASISEISEA IKERGMNNML AVRIKDFLER IVKDHGGIDL EWLRESPPDK AKDYLLSIRG LGLKSVECVR LLTLHNLAFP VDTNVGRIAV RMGWVPLQPL PESLQLHLLE LYPVLESIQK FLWPRLCKLD QRTLYELHYQ LITFGKVFCT KSRPNCNACP MRGECRHFAS AYASARLALP APEERSLTSA TIPVPPESYP PVAIPMIELP LPLEKSLASG APSNRENCEP IIEEPASPGQ ECTEITESDI EDAYYNEDPD EIPTIKLNIE QFGMTLREHM ERNMELQEGD MSKALVALHP TTTSIPTPKL KNISRLRTEH QVYELPDSHR LLDGMDKREP DDPSPYLLAI WTPGETANSA QPPEQKCGGK ASGKMCFDET CSECNSLREA NSQTVRGTLL IPCRTAMRGS FPLNGTYFQV NELFADHESS LKPIDVPRDW IWDLPRRTVY FGTSVTSIFR GLSTEQIQFC FWKGFVCVRG FEQKTRAPRP LMARLHFPAS KLKNNKT //