ID CLF_ARATH Reviewed; 902 AA.
AC P93831; O80455;
DT 16-MAY-2003, integrated into UniProtKB/Swiss-Prot.
DT 16-MAY-2003, sequence version 2.
DT 13-FEB-2019, entry version 153.
DE RecName: Full=Histone-lysine N-methyltransferase CLF;
DE EC=2.1.1.43;
DE AltName: Full=Polycomb group protein CURLY LEAF;
DE AltName: Full=Protein INCURVATA 1;
DE AltName: Full=Protein SET DOMAIN GROUP 1;
DE AltName: Full=Protein photoperiod insensitive flowering;
GN Name=CLF; Synonyms=ICU1, PIF1, PIF2, SDG1, SET1;
GN OrderedLocusNames=At2g23380; ORFNames=F26B6.3;
OS Arabidopsis thaliana (Mouse-ear cress).
OC Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;
OC Spermatophyta; Magnoliophyta; eudicotyledons; Gunneridae;
OC Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae;
OC Arabidopsis.
OX NCBI_TaxID=3702;
RN [1]
RP NUCLEOTIDE SEQUENCE [MRNA], FUNCTION, AND TISSUE SPECIFICITY.
RC STRAIN=cv. Landsberg erecta; TISSUE=Flower;
RX PubMed=9052779; DOI=10.1038/386044a0;
RA Goodrich J., Puangsomlee P., Martin M., Long D., Meyerowitz E.M.,
RA Coupland G.;
RT "A Polycomb-group gene regulates homeotic gene expression in
RT Arabidopsis.";
RL Nature 386:44-51(1997).
RN [2]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=cv. Columbia;
RX PubMed=10617197; DOI=10.1038/45471;
RA Lin X., Kaul S., Rounsley S.D., Shea T.P., Benito M.-I., Town C.D.,
RA Fujii C.Y., Mason T.M., Bowman C.L., Barnstead M.E., Feldblyum T.V.,
RA Buell C.R., Ketchum K.A., Lee J.J., Ronning C.M., Koo H.L.,
RA Moffat K.S., Cronin L.A., Shen M., Pai G., Van Aken S., Umayam L.,
RA Tallon L.J., Gill J.E., Adams M.D., Carrera A.J., Creasy T.H.,
RA Goodman H.M., Somerville C.R., Copenhaver G.P., Preuss D.,
RA Nierman W.C., White O., Eisen J.A., Salzberg S.L., Fraser C.M.,
RA Venter J.C.;
RT "Sequence and analysis of chromosome 2 of the plant Arabidopsis
RT thaliana.";
RL Nature 402:761-768(1999).
RN [3]
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
RT reference genome.";
RL Plant J. 89:789-804(2017).
RN [4]
RP FUNCTION.
RX PubMed=9736998; DOI=10.1007/s004250050389;
RA Kim G.-T., Tsukaya H., Uchimiya H.;
RT "The CURLY LEAF gene controls both division and elongation of cells
RT during the expansion of the leaf blade in Arabidopsis thaliana.";
RL Planta 206:175-183(1998).
RN [5]
RP FUNCTION.
RX PubMed=11063708;
RA Serrano-Cartagena J., Candela H., Robles P., Ponce M.R.,
RA Perez-Perez J.M., Piqueras P., Micol J.L.;
RT "Genetic analysis of incurvata mutants reveals three independent
RT genetic operations at work in Arabidopsis leaf morphogenesis.";
RL Genetics 156:1363-1377(2000).
RN [6]
RP FUNCTION.
RX PubMed=11250158; DOI=10.1016/S0960-9822(01)00072-0;
RA Soerensen M.B., Chaudhury A.M., Robert H., Bancharel E., Berger F.;
RT "Polycomb group genes control pattern formation in plant seed.";
RL Curr. Biol. 11:277-281(2001).
RN [7]
RP SUBCELLULAR LOCATION.
RX PubMed=11691919; DOI=10.1093/nar/29.21.4319;
RA Baumbusch L.O., Thorstensen T., Krauss V., Fischer A., Naumann K.,
RA Assalkhou R., Schulz I., Reuter G., Aalen R.B.;
RT "The Arabidopsis thaliana genome contains at least 29 active genes
RT encoding SET domain proteins that can be assigned to four
RT evolutionarily conserved classes.";
RL Nucleic Acids Res. 29:4319-4333(2001).
RN [8]
RP INTERACTION WITH FIE.
RX PubMed=14871310; DOI=10.1111/j.1365-313X.2003.01996.x;
RA Katz A., Oliva M., Mosquna A., Hakim O., Ohad N.;
RT "FIE and CURLY LEAF polycomb proteins interact in the regulation of
RT homeobox gene expression during sporophyte development.";
RL Plant J. 37:707-719(2004).
RN [9]
RP INTERACTION WITH RING1A.
RX PubMed=19097900; DOI=10.1016/j.cub.2008.11.019;
RA Xu L., Shen W.H.;
RT "Polycomb silencing of KNOX genes confines shoot stem cell niches in
RT Arabidopsis.";
RL Curr. Biol. 18:1966-1971(2008).
RN [10]
RP INTERACTION WITH BLI.
RX PubMed=20647345; DOI=10.1105/tpc.109.073403;
RA Schatlowski N., Stahl Y., Hohenstatt M.L., Goodrich J., Schubert D.;
RT "The CURLY LEAF interacting protein BLISTER controls expression of
RT polycomb-group target genes and cellular differentiation of
RT Arabidopsis thaliana.";
RL Plant Cell 22:2291-2305(2010).
RN [11]
RP INTERACTION WITH ALP1.
RX PubMed=26642436; DOI=10.1371/journal.pgen.1005660;
RA Liang S.C., Hartwig B., Perera P., Mora-Garcia S., de Leau E.,
RA Thornton H., de Lima Alves F., de Alves F.L., Rappsilber J.,
RA Rapsilber J., Yang S., James G.V., Schneeberger K., Finnegan E.J.,
RA Turck F., Goodrich J.;
RT "Kicking against the PRCs - A domesticated transposase antagonises
RT silencing mediated by polycomb group proteins and is an accessory
RT component of polycomb repressive complex 2.";
RL PLoS Genet. 11:E1005660-E1005660(2015).
CC -!- FUNCTION: Polycomb group (PcG) protein. Catalytic subunit of some
CC PcG multiprotein complex, which methylates 'Lys-27' of histone H3,
CC leading to transcriptional repression of the affected target
CC genes. Required to regulate floral development by repressing the
CC AGAMOUS homeotic gene in leaves, influorescence stems and flowers.
CC Regulates the antero-posterior organization of the endosperm, as
CC well as the division and elongation rates of leaf cells. PcG
CC proteins act by forming multiprotein complexes, which are required
CC to maintain the transcriptionally repressive state of homeotic
CC genes throughout development. PcG proteins are not required to
CC initiate repression, but to maintain it during later stages of
CC development. {ECO:0000269|PubMed:11063708,
CC ECO:0000269|PubMed:11250158, ECO:0000269|PubMed:9052779,
CC ECO:0000269|PubMed:9736998}.
CC -!- CATALYTIC ACTIVITY:
CC Reaction=L-lysyl-[histone] + S-adenosyl-L-methionine = H(+) +
CC N(6)-methyl-L-lysyl-[histone] + S-adenosyl-L-homocysteine;
CC Xref=Rhea:RHEA:10024, Rhea:RHEA-COMP:9845, Rhea:RHEA-COMP:9846,
CC ChEBI:CHEBI:15378, ChEBI:CHEBI:29969, ChEBI:CHEBI:57856,
CC ChEBI:CHEBI:59789, ChEBI:CHEBI:61929; EC=2.1.1.43;
CC Evidence={ECO:0000255|PROSITE-ProRule:PRU00909};
CC -!- SUBUNIT: Probable component of a PcG complex. In plants, PcG
CC complexes are probably composed of a member of the EZ family (CLF
CC or MEA), FIE, and a member of the VEFS family (FIS2, VRN2 or EMF2)
CC (By similarity). Interacts with FIE (PubMed:14871310). Interacts
CC with RING1A (PubMed:19097900). Binds to ALP1 (PubMed:26642436).
CC Interacts with BLI (PubMed:20647345). {ECO:0000250,
CC ECO:0000269|PubMed:14871310, ECO:0000269|PubMed:19097900,
CC ECO:0000269|PubMed:20647345, ECO:0000269|PubMed:26642436}.
CC -!- INTERACTION:
CC Q9SHY1:At1g65740; NbExp=2; IntAct=EBI-307155, EBI-15923123;
CC Q8L6Y4:EMF2; NbExp=4; IntAct=EBI-307155, EBI-2128696;
CC Q9LT47:FIE; NbExp=4; IntAct=EBI-307155, EBI-307146;
CC O22607:MSI4; NbExp=3; IntAct=EBI-307155, EBI-9661079;
CC Q8W5B1:VRN2; NbExp=3; IntAct=EBI-307155, EBI-2128880;
CC -!- SUBCELLULAR LOCATION: Nucleus {ECO:0000269|PubMed:11691919}.
CC -!- TISSUE SPECIFICITY: Strongly expressed throughout the apical
CC meristem, leaf primordia, and leaves of 7-8 day-old seedling.
CC Weakly expressed in the vasculature of hypocotyl. Strongly
CC expressed throughout the young stages 1 and 2 floral meristems
CC that arose on the flanks of the apex. In stage 3 and 4 flowers, it
CC is expressed in the emerging sepal primordia and in the dome of
CC the floral meristem. During stages 6 and 7, it is strongly
CC expressed in developing petal and stamen, and weakly expressed in
CC the sepals. Late in floral development, at stage 12, it is weakly
CC expressed in all floral whorls, and expressed at intermediate
CC level in petals and ovules. {ECO:0000269|PubMed:9052779}.
CC -!- DEVELOPMENTAL STAGE: Expressed in all four whorls throughout
CC flower development.
CC -!- SIMILARITY: Belongs to the class V-like SAM-binding
CC methyltransferase superfamily. Histone-lysine methyltransferase
CC family. EZ subfamily. {ECO:0000255|PROSITE-ProRule:PRU00909}.
DR EMBL; Y10580; CAA71599.1; -; mRNA.
DR EMBL; AC003040; AAC23781.1; -; Genomic_DNA.
DR EMBL; CP002685; AEC07449.1; -; Genomic_DNA.
DR PIR; T01127; T01127.
DR RefSeq; NP_179919.1; NM_127902.6.
DR UniGene; At.22; -.
DR ProteinModelPortal; P93831; -.
DR BioGrid; 2222; 17.
DR DIP; DIP-31377N; -.
DR IntAct; P93831; 14.
DR STRING; 3702.AT2G23380.1; -.
DR iPTMnet; P93831; -.
DR PaxDb; P93831; -.
DR PRIDE; P93831; -.
DR EnsemblPlants; AT2G23380.1; AT2G23380.1; AT2G23380.
DR GeneID; 816870; -.
DR Gramene; AT2G23380.1; AT2G23380.1; AT2G23380.
DR KEGG; ath:AT2G23380; -.
DR Araport; AT2G23380; -.
DR TAIR; locus:2005501; AT2G23380.
DR eggNOG; KOG1079; Eukaryota.
DR eggNOG; COG2940; LUCA.
DR HOGENOM; HOG000083511; -.
DR InParanoid; P93831; -.
DR KO; K11430; -.
DR OMA; CAVNSRE; -.
DR OrthoDB; 875190at2759; -.
DR PhylomeDB; P93831; -.
DR Reactome; R-ATH-212300; PRC2 methylates histones and DNA.
DR Reactome; R-ATH-2559580; Oxidative Stress Induced Senescence.
DR Reactome; R-ATH-8953750; Transcriptional Regulation by E2F6.
DR PRO; PR:P93831; -.
DR Proteomes; UP000006548; Chromosome 2.
DR ExpressionAtlas; P93831; baseline and differential.
DR Genevisible; P93831; AT.
DR GO; GO:0005677; C:chromatin silencing complex; IEA:EnsemblPlants.
DR GO; GO:0005634; C:nucleus; IDA:TAIR.
DR GO; GO:0031519; C:PcG protein complex; IEA:EnsemblPlants.
DR GO; GO:0003700; F:DNA-binding transcription factor activity; ISS:TAIR.
DR GO; GO:0018024; F:histone-lysine N-methyltransferase activity; IDA:TAIR.
DR GO; GO:0003727; F:single-stranded RNA binding; IDA:TAIR.
DR GO; GO:0030154; P:cell differentiation; IEA:UniProtKB-KW.
DR GO; GO:0006342; P:chromatin silencing; IEA:EnsemblPlants.
DR GO; GO:0009294; P:DNA mediated transformation; IMP:TAIR.
DR GO; GO:0009908; P:flower development; IEA:UniProtKB-KW.
DR GO; GO:0070734; P:histone H3-K27 methylation; IEA:EnsemblPlants.
DR GO; GO:0016571; P:histone methylation; IMP:TAIR.
DR GO; GO:0009965; P:leaf morphogenesis; IMP:TAIR.
DR GO; GO:0045857; P:negative regulation of molecular function, epigenetic; IMP:TAIR.
DR GO; GO:0006349; P:regulation of gene expression by genetic imprinting; IMP:TAIR.
DR GO; GO:0048586; P:regulation of long-day photoperiodism, flowering; IEA:EnsemblPlants.
DR GO; GO:0010228; P:vegetative to reproductive phase transition of meristem; IMP:TAIR.
DR InterPro; IPR026489; CXC_dom.
DR InterPro; IPR025778; Hist-Lys_N-MeTrfase_EZ.
DR InterPro; IPR001214; SET_dom.
DR InterPro; IPR033467; Tesmin/TSO1-like_CXC.
DR PANTHER; PTHR22884:SF237; PTHR22884:SF237; 1.
DR Pfam; PF00856; SET; 1.
DR SMART; SM01114; CXC; 1.
DR SMART; SM00317; SET; 1.
DR PROSITE; PS51633; CXC; 1.
DR PROSITE; PS51576; SAM_MT43_EZ; 1.
DR PROSITE; PS50280; SET; 1.
PE 1: Evidence at protein level;
KW Chromatin regulator; Complete proteome; Developmental protein;
KW Differentiation; Flowering; Methyltransferase; Nucleus;
KW Reference proteome; Repressor; S-adenosyl-L-methionine; Transcription;
KW Transcription regulation; Transferase.
FT CHAIN 1 902 Histone-lysine N-methyltransferase CLF.
FT /FTId=PRO_0000213995.
FT DOMAIN 531 581 SANT.
FT DOMAIN 638 737 CXC. {ECO:0000255|PROSITE-
FT ProRule:PRU00970}.
FT DOMAIN 752 867 SET. {ECO:0000255|PROSITE-
FT ProRule:PRU00190}.
FT COMPBIAS 649 720 Cys-rich.
FT CONFLICT 225 225 S -> N (in Ref. 2; CAA71599).
FT {ECO:0000305}.
FT CONFLICT 332 332 T -> P (in Ref. 2; CAA71599).
FT {ECO:0000305}.
FT CONFLICT 415 415 K -> N (in Ref. 2; CAA71599).
FT {ECO:0000305}.
FT CONFLICT 658 658 K -> Q (in Ref. 2; CAA71599).
FT {ECO:0000305}.
FT CONFLICT 674 674 C -> Y (in Ref. 2; CAA71599).
FT {ECO:0000305}.
FT CONFLICT 761 761 V -> I (in Ref. 2; CAA71599).
FT {ECO:0000305}.
SQ SEQUENCE 902 AA; 100370 MW; 90B45ED27D219D64 CRC64;
MASEASPSSS ATRSEPPKDS PAEERGPASK EVSEVIESLK KKLAADRCIS IKKRIDENKK
NLFAITQSFM RSSMERGGSC KDGSDLLVKR QRDSPGMKSG IDESNNNRYV EDGPASSGMV
QGSSVPVKIS LRPIKMPDIK RLSPYTTWVF LDRNQRMTED QSVVGRRRIY YDQTGGEALI
CSDSEEEAID DEEEKRDFLE PEDYIIRMTL EQLGLSDSVL AELASFLSRS TSEIKARHGV
LMKEKEVSES GDNQAESSLL NKDMEGALDS FDNLFCRRCL VFDCRLHGCS QDLIFPAEKP
APWCPPVDEN LTCGANCYKT LLKSGRFPGY GTIEGKTGTS SDGAGTKTTP TKFSSKLNGR
KPKTFPSESA SSNEKCALET SDSENGLQQD TNSDKVSSSP KVKGSGRRVG RKRNKNRVAE
RVPRKTQKRQ KKTEASDSDS IASGSCSPSD AKHKDNEDAT SSSQKHVKSG NSGKSRKNGT
PAEVSNNSVK DDVPVCQSNE VASELDAPGS DESLRKEEFM GETVSRGRLA TNKLWRPLEK
SLFDKGVEIF GMNSCLIARN LLSGFKSCWE VFQYMTCSEN KASFFGGDGL NPDGSSKFDI
NGNMVNNQVR RRSRFLRRRG KVRRLKYTWK SAAYHSIRKR ITEKKDQPCR QFNPCNCKIA
CGKECPCLLN GTCCEKYCGC PKSCKNRFRG CHCAKSQCRS RQCPCFAADR ECDPDVCRNC
WVIGGDGSLG VPSQRGDNYE CRNMKLLLKQ QQRVLLGISD VSGWGAFLKN SVSKHEYLGE
YTGELISHKE ADKRGKIYDR ENCSFLFNLN DQFVLDAYRK GDKLKFANHS PEPNCYAKVI
MVAGDHRVGI FAKERILAGE ELFYDYRYEP DRAPAWAKKP EAPGSKKDEN VTPSVGRPKK
LA
//
