LFY_ARATH
ID LFY_ARATH Reviewed; 420 AA.
AC Q00958; A0MFR2; Q1PDG5; Q8LSH2; Q8LSH3;
DT 01-APR-1993, integrated into UniProtKB/Swiss-Prot.
DT 22-SEP-2009, sequence version 2.
DT 03-AUG-2022, entry version 158.
DE RecName: Full=Protein LEAFY;
GN Name=LFY; OrderedLocusNames=At5g61850; ORFNames=MAC9.18;
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 [GENOMIC DNA].
RX PubMed=1350515; DOI=10.1016/0092-8674(92)90295-n;
RA Weigel D., Alvarez J., Smyth D.R., Yanofsky M.F., Meyerowitz E.M.;
RT "LEAFY controls floral meristem identity in Arabidopsis.";
RL Cell 69:843-859(1992).
RN [2]
RP NUCLEOTIDE SEQUENCE [GENOMIC DNA], AND VARIANTS.
RC STRAIN=cv. Bla-1, cv. Bretagny, cv. Bs-1, cv. Bu-0, cv. Bu-2, cv. Chi-1,
RC cv. Co-1, cv. Columbia, cv. Cvi-0, cv. Gr-3, cv. Ita-0, cv. Jl-1,
RC cv. Kas-1, cv. Kent, cv. Landsberg erecta, cv. Li-3, cv. Li-8, cv. Lisse,
RC and cv. Wassilewskija;
RX PubMed=11973317; DOI=10.1093/genetics/160.4.1641;
RA Olsen K.M., Womack A., Garrett A.R., Suddith J.I., Purugganan M.D.;
RT "Contrasting evolutionary forces in the Arabidopsis thaliana floral
RT developmental pathway.";
RL Genetics 160:1641-1650(2002).
RN [3]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=cv. Columbia;
RX PubMed=9628582; DOI=10.1093/dnares/5.1.41;
RA Sato S., Kaneko T., Kotani H., Nakamura Y., Asamizu E., Miyajima N.,
RA Tabata S.;
RT "Structural analysis of Arabidopsis thaliana chromosome 5. IV. Sequence
RT features of the regions of 1,456,315 bp covered by nineteen physically
RT assigned P1 and TAC clones.";
RL DNA Res. 5:41-54(1998).
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].
RC STRAIN=cv. Columbia;
RX PubMed=17147637; DOI=10.1111/j.1467-7652.2006.00183.x;
RA Underwood B.A., Vanderhaeghen R., Whitford R., Town C.D., Hilson P.;
RT "Simultaneous high-throughput recombinational cloning of open reading
RT frames in closed and open configurations.";
RL Plant Biotechnol. J. 4:317-324(2006).
RN [6]
RP FUNCTION.
RA Bowman J.L., Alvarez J., Weigel D., Meyerowitz E.M., Smyth D.R.;
RT "Control of flower development in Arabidopsis thaliana by APETALA1 and
RT interacting genes.";
RL Development 119:721-743(1993).
RN [7]
RP FUNCTION.
RX PubMed=8565821; DOI=10.1242/dev.122.1.11;
RA Krizek B.A., Meyerowitz E.M.;
RT "The Arabidopsis homeotic genes APETALA3 and PISTILLATA are sufficient to
RT provide the B class organ identity function.";
RL Development 122:11-22(1996).
RN [8]
RP FUNCTION.
RX PubMed=9783581; DOI=10.1038/26903;
RA Parcy F., Nilsson O., Busch M.A., Lee I., Weigel D.;
RT "A genetic framework for floral patterning.";
RL Nature 395:561-566(1998).
RN [9]
RP INTERACTION WITH SYD AND BRM.
RX PubMed=22323601; DOI=10.1073/pnas.1113409109;
RA Wu M.F., Sang Y., Bezhani S., Yamaguchi N., Han S.K., Li Z., Su Y.,
RA Slewinski T.L., Wagner D.;
RT "SWI2/SNF2 chromatin remodeling ATPases overcome polycomb repression and
RT control floral organ identity with the LEAFY and SEPALLATA3 transcription
RT factors.";
RL Proc. Natl. Acad. Sci. U.S.A. 109:3576-3581(2012).
RN [10]
RP X-RAY CRYSTALLOGRAPHY (2.10 ANGSTROMS) OF 227-420 IN COMPLEX WITH DNA,
RP SUBUNIT, AND MUTAGENESIS OF ARG-233; GLU-234; PRO-236; THR-240; ASN-287;
RP ASN-302; LYS-303; PRO-304 AND ARG-327.
RC STRAIN=cv. Landsberg erecta;
RX PubMed=18784751; DOI=10.1038/emboj.2008.184;
RA Hames C., Ptchelkine D., Grimm C., Thevenon E., Moyroud E., Gerard F.,
RA Martiel J.L., Benlloch R., Parcy F., Mueller C.W.;
RT "Structural basis for LEAFY floral switch function and similarity with
RT helix-turn-helix proteins.";
RL EMBO J. 27:2628-2637(2008).
CC -!- FUNCTION: Probable transcription factor that promotes early floral
CC meristem identity in synergy with APETALA1. Is required subsequently
CC for the transition of an inflorescence meristem into a floral meristem,
CC by an immediate upstream regulation of the ABC classes of floral
CC homeotic genes. Activates directly APETALA1, CAULIFLOWER and AGAMOUS,
CC and indirectly APETALA3 and PISTILLATA with the cooperation of UFO.
CC {ECO:0000269|PubMed:8565821, ECO:0000269|PubMed:9783581,
CC ECO:0000269|Ref.6}.
CC -!- SUBUNIT: Forms homodimer when associated to DNA. Interacts with SYD and
CC BRM. {ECO:0000269|PubMed:18784751, ECO:0000269|PubMed:22323601}.
CC -!- INTERACTION:
CC Q00958; Q6EVK6: BRM; NbExp=3; IntAct=EBI-1644366, EBI-2025535;
CC Q00958; F4IHS2: SYD; NbExp=4; IntAct=EBI-1644366, EBI-15967899;
CC Q00958; Q39090: UFO; NbExp=6; IntAct=EBI-1644366, EBI-590758;
CC -!- SUBCELLULAR LOCATION: Nucleus {ECO:0000255|PROSITE-ProRule:PRU00768}.
CC -!- TISSUE SPECIFICITY: Expressed uniformly throughout the young floral
CC primordia.
CC -!- DEVELOPMENTAL STAGE: Expressed at an early stage of floral initiation.
CC -!- INDUCTION: Positively regulated by CAULIFLOWER and APETALA1. Down-
CC regulated by TFL1.
CC -!- MISCELLANEOUS: Mutations in the LEAFY gene result in the complete
CC transformation of the first few flowers into leaves with associated
CC shoots.
CC -!- SIMILARITY: Belongs to the FLO/LFY family. {ECO:0000305}.
CC -!- SEQUENCE CAUTION:
CC Sequence=AAA32826.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305};
CC Sequence=AAM27927.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305};
CC Sequence=AAM27928.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305};
CC Sequence=AAM27929.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305};
CC Sequence=AAM27930.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305};
CC Sequence=AAM27931.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305};
CC Sequence=AAM27932.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305};
CC Sequence=AAM27933.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305};
CC Sequence=AAM27934.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305};
CC Sequence=AAM27935.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305};
CC Sequence=AAM27936.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305};
CC Sequence=AAM27937.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305};
CC Sequence=AAM27938.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305};
CC Sequence=AAM27939.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305};
CC Sequence=AAM27940.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305};
CC Sequence=AAM27941.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305};
CC Sequence=ABK28773.1; Type=Erroneous termination; Note=Extended C-terminus.; Evidence={ECO:0000305};
CC Sequence=BAB10085.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305};
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DR EMBL; M91208; AAA32826.1; ALT_SEQ; Genomic_DNA.
DR EMBL; AF466787; AAM27927.1; ALT_SEQ; Genomic_DNA.
DR EMBL; AF466788; AAM27928.1; ALT_SEQ; Genomic_DNA.
DR EMBL; AF466789; AAM27929.1; ALT_SEQ; Genomic_DNA.
DR EMBL; AF466790; AAM27930.1; ALT_SEQ; Genomic_DNA.
DR EMBL; AF466791; AAM27931.1; ALT_SEQ; Genomic_DNA.
DR EMBL; AF466792; AAM27932.1; ALT_SEQ; Genomic_DNA.
DR EMBL; AF466793; AAM27933.1; ALT_SEQ; Genomic_DNA.
DR EMBL; AF466794; AAM27934.1; ALT_SEQ; Genomic_DNA.
DR EMBL; AF466795; AAM27935.1; ALT_SEQ; Genomic_DNA.
DR EMBL; AF466796; AAM27936.1; ALT_SEQ; Genomic_DNA.
DR EMBL; AF466797; AAM27937.1; ALT_SEQ; Genomic_DNA.
DR EMBL; AF466798; AAM27938.1; ALT_SEQ; Genomic_DNA.
DR EMBL; AF466799; AAM27939.1; ALT_SEQ; Genomic_DNA.
DR EMBL; AF466800; AAM27940.1; ALT_SEQ; Genomic_DNA.
DR EMBL; AF466801; AAM27941.1; ALT_SEQ; Genomic_DNA.
DR EMBL; AB010069; BAB10085.1; ALT_SEQ; Genomic_DNA.
DR EMBL; CP002688; AED97525.1; -; Genomic_DNA.
DR EMBL; DQ447103; ABE66271.1; -; mRNA.
DR EMBL; DQ653389; ABK28773.1; ALT_SEQ; mRNA.
DR PIR; A38104; A38104.
DR PIR; B38104; B38104.
DR PIR; C38104; C38104.
DR RefSeq; NP_001331273.1; NM_001345500.1.
DR RefSeq; NP_200993.1; NM_125579.1.
DR PDB; 2VY1; X-ray; 2.10 A; A=227-420.
DR PDB; 2VY2; X-ray; 2.30 A; A=227-420.
DR PDBsum; 2VY1; -.
DR PDBsum; 2VY2; -.
DR AlphaFoldDB; Q00958; -.
DR SMR; Q00958; -.
DR BioGRID; 21551; 5.
DR DIP; DIP-40341N; -.
DR IntAct; Q00958; 3.
DR STRING; 3702.AT5G61850.1; -.
DR iPTMnet; Q00958; -.
DR PaxDb; Q00958; -.
DR PRIDE; Q00958; -.
DR EnsemblPlants; AT5G61850.1; AT5G61850.1; AT5G61850.
DR GeneID; 836307; -.
DR Gramene; AT5G61850.1; AT5G61850.1; AT5G61850.
DR KEGG; ath:AT5G61850; -.
DR Araport; AT5G61850; -.
DR TAIR; locus:2159208; AT5G61850.
DR eggNOG; ENOG502QSDD; Eukaryota.
DR HOGENOM; CLU_060646_0_0_1; -.
DR InParanoid; Q00958; -.
DR OrthoDB; 1031599at2759; -.
DR PhylomeDB; Q00958; -.
DR EvolutionaryTrace; Q00958; -.
DR PRO; PR:Q00958; -.
DR Proteomes; UP000006548; Chromosome 5.
DR ExpressionAtlas; Q00958; baseline and differential.
DR Genevisible; Q00958; AT.
DR GO; GO:0005634; C:nucleus; TAS:TAIR.
DR GO; GO:0031490; F:chromatin DNA binding; IDA:TAIR.
DR GO; GO:0003700; F:DNA-binding transcription factor activity; IDA:TAIR.
DR GO; GO:0042803; F:protein homodimerization activity; IDA:UniProtKB.
DR GO; GO:0043621; F:protein self-association; IPI:TAIR.
DR GO; GO:0043565; F:sequence-specific DNA binding; IDA:TAIR.
DR GO; GO:0000976; F:transcription cis-regulatory region binding; IPI:TAIR.
DR GO; GO:0030154; P:cell differentiation; IEA:UniProtKB-KW.
DR GO; GO:0010582; P:floral meristem determinacy; IGI:TAIR.
DR GO; GO:0009908; P:flower development; IMP:TAIR.
DR GO; GO:0009740; P:gibberellic acid mediated signaling pathway; TAS:TAIR.
DR GO; GO:0010077; P:maintenance of inflorescence meristem identity; IGI:TAIR.
DR Gene3D; 1.10.4180.10; -; 1.
DR InterPro; IPR035209; FLO/LFY_C.
DR InterPro; IPR002910; FLO_LFY.
DR InterPro; IPR038276; Floricaula/leafy_C_sf.
DR InterPro; IPR035079; LFY_SAM.
DR PANTHER; PTHR36079; PTHR36079; 1.
DR Pfam; PF17538; C_LFY_FLO; 1.
DR Pfam; PF01698; SAM_LFY; 1.
PE 1: Evidence at protein level;
KW 3D-structure; Activator; Coiled coil; Developmental protein;
KW Differentiation; DNA-binding; Flowering; Nucleus; Reference proteome;
KW Transcription; Transcription regulation.
FT CHAIN 1..420
FT /note="Protein LEAFY"
FT /id="PRO_0000129147"
FT DNA_BIND 233..237
FT /evidence="ECO:0000269|PubMed:18784751,
FT ECO:0007744|PDB:2VY1, ECO:0007744|PDB:2VY2"
FT DNA_BIND 302..309
FT /evidence="ECO:0000269|PubMed:18784751,
FT ECO:0007744|PDB:2VY1, ECO:0007744|PDB:2VY2"
FT DNA_BIND 373..376
FT /evidence="ECO:0000269|PubMed:18784751,
FT ECO:0007744|PDB:2VY1, ECO:0007744|PDB:2VY2"
FT REGION 153..231
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COILED 108..133
FT /evidence="ECO:0000255"
FT MOTIF 115..122
FT /note="Nuclear localization signal"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00768"
FT COMPBIAS 154..171
FT /note="Polar residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT SITE 280
FT /note="Interaction with DNA"
FT /evidence="ECO:0000269|PubMed:18784751,
FT ECO:0007744|PDB:2VY1, ECO:0007744|PDB:2VY2"
FT SITE 287
FT /note="Interaction with DNA"
FT /evidence="ECO:0000269|PubMed:18784751,
FT ECO:0007744|PDB:2VY1, ECO:0007744|PDB:2VY2"
FT SITE 291
FT /note="Interaction with DNA"
FT /evidence="ECO:0000269|PubMed:18784751,
FT ECO:0007744|PDB:2VY1, ECO:0007744|PDB:2VY2"
FT SITE 338
FT /note="Interaction with DNA"
FT /evidence="ECO:0000269|PubMed:18784751,
FT ECO:0007744|PDB:2VY1, ECO:0007744|PDB:2VY2"
FT VARIANT 8
FT /note="S -> R (in strain: cv. Jl-1)"
FT VARIANT 78
FT /note="G -> D (in strain: cv. Ita-0)"
FT MUTAGEN 233
FT /note="R->A: Impaired DNA-binding."
FT /evidence="ECO:0000269|PubMed:18784751"
FT MUTAGEN 234
FT /note="E->K: In lfy-4; decreased in vitro DNA-binding
FT affinities and leafy phenotype."
FT /evidence="ECO:0000269|PubMed:18784751"
FT MUTAGEN 236
FT /note="P->L: In lfy-5; decreased in vitro DNA-binding
FT affinities and leafy phenotype."
FT /evidence="ECO:0000269|PubMed:18784751"
FT MUTAGEN 240
FT /note="T->M: In lfy-3; leafy phenotype."
FT /evidence="ECO:0000269|PubMed:18784751"
FT MUTAGEN 287
FT /note="N->A: Impaired DNA-binding."
FT /evidence="ECO:0000269|PubMed:18784751"
FT MUTAGEN 302
FT /note="N->D: In lfy-20; reduced DNA-binding affinity with a
FT weak leafy phenotype."
FT /evidence="ECO:0000269|PubMed:18784751"
FT MUTAGEN 303
FT /note="K->A: Impaired DNA-binding."
FT /evidence="ECO:0000269|PubMed:18784751"
FT MUTAGEN 304
FT /note="P->L: In lfy-28; impaired DNA-binding and strong
FT leafy phenotype."
FT /evidence="ECO:0000269|PubMed:18784751"
FT MUTAGEN 327
FT /note="R->K: In lfy-9; leafy phenotype."
FT /evidence="ECO:0000269|PubMed:18784751"
FT HELIX 253..276
FT /evidence="ECO:0007829|PDB:2VY1"
FT HELIX 287..295
FT /evidence="ECO:0007829|PDB:2VY1"
FT HELIX 303..308
FT /evidence="ECO:0007829|PDB:2VY1"
FT HELIX 310..318
FT /evidence="ECO:0007829|PDB:2VY1"
FT HELIX 320..332
FT /evidence="ECO:0007829|PDB:2VY1"
FT HELIX 337..343
FT /evidence="ECO:0007829|PDB:2VY1"
FT HELIX 345..353
FT /evidence="ECO:0007829|PDB:2VY1"
FT TURN 354..357
FT /evidence="ECO:0007829|PDB:2VY1"
FT HELIX 359..365
FT /evidence="ECO:0007829|PDB:2VY1"
FT HELIX 369..371
FT /evidence="ECO:0007829|PDB:2VY1"
FT HELIX 376..392
FT /evidence="ECO:0007829|PDB:2VY1"
SQ SEQUENCE 420 AA; 46582 MW; 952268D52E035CFF CRC64;
MDPEGFTSGL FRWNPTRALV QAPPPVPPPL QQQPVTPQTA AFGMRLGGLE GLFGPYGIRF
YTAAKIAELG FTASTLVGMK DEELEEMMNS LSHIFRWELL VGERYGIKAA VRAERRRLQE
EEEEESSRRR HLLLSAAGDS GTHHALDALS QEGLSEEPVQ QQDQTDAAGN NGGGGSGYWD
AGQGKMKKQQ QQRRRKKPML TSVETDEDVN EGEDDDGMDN GNGGSGLGTE RQREHPFIVT
EPGEVARGKK NGLDYLFHLY EQCREFLLQV QTIAKDRGEK CPTKVTNQVF RYAKKSGASY
INKPKMRHYV HCYALHCLDE EASNALRRAF KERGENVGSW RQACYKPLVN IACRHGWDID
AVFNAHPRLS IWYVPTKLRQ LCHLERNNAV AAAAALVGGI SCTGSSTSGR GGCGGDDLRF
