PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

PlantRegMap/PlantTFDB v5.0

Plant Transcription Factor Database

Transcription Factor Information

Basic Information | Signature Domain | Sequence |

Basic Information? help Back to Top

TF ID

Araha.9375s0006.1.p

Organism

Arabidopsis halleri

Taxonomic ID

81970

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis

Family

LFY

Protein Properties

Length: 421aa MW: 46426 Da PI: 7.3137

Description

LFY family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Araha.9375s0006.1.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	FLO_LFY	625.8	7.4e-191	1	390	1	386
FLO_LFY 1 mdpeafsaslfkwdpraaaaapparlleeaavseapleaaaaaaarklreleelfkayGvryltvakiaelGftvstLvdmkdeelddlm 90 mdpe f++ lf+w+p a +++p + + +++ p++ ++aa ++l +le lf ayG+r++t+akiaelGft+stLv+mkdeel+++m Araha.9375s0006.1.p 1 MDPEGFTSGLFRWNPTRALVQAPPPVPPPPQQQ--PATPQTAAFGMRLGGLEGLFGAYGIRFYTAAKIAELGFTASTLVGMKDEELEEMM 88 9***********7666655555555444333..33356677788889************************************* PP FLO_LFY 91 kslseifrldllvGeryGikaavraerrrleeeea.ekkrrkll.....sedeetaldalsqeglseepvqeekeaagsggeglgeaelv 174 +sls+ifr++llvGeryGikaavraerrrl+eee+ +++rr+ll + +++aldalsqeglseepvq++ ++ ++g++g g ++ Araha.9375s0006.1.p 89 NSLSHIFRWELLVGERYGIKAAVRAERRRLQEEEEeSSRRRHLLlsaagDSGTHHALDALSQEGLSEEPVQQQDQTDAAGNNGGGGSGYW 178 **************************9965515566676678844344556************9777666666665666666 PP FLO_LFY 175 aaeekkseeekkkaskkkqkrkkkkelkseededeeeeededeeg.....sgedgeerqrehPfivtepgevargkknGLDYLfdLyeqC 259 a ++k kk++ + +++rkk ++ e+d+d +e ed+d+++ +g g+erqrehPfivtepgevargkknGLDYLf+LyeqC Araha.9375s0006.1.p 179 EAGQAK---MKKQQ-Q-QRRRKKPMVTSVETDDDVNEGEDDDGMDngnggGGGLGTERQREHPFIVTEPGEVARGKKNGLDYLFHLYEQC 263 665322...23333.2.233333333344455555555555544412222444566****************************** PP FLO_LFY 260 refLlqvqkiakerGekcPtkvtnqvfryakkagasyinkPkmrhYvhCYalhcLdeeasnalrrafkergenvGawrqacykplvaiaa 349 refLlqvq+iak+rGekcPtkvtnqvfryakk+gasyinkPkmrhYvhCYalhcLde+asn+lrrafkergenvG+wrqacykplv+ia Araha.9375s0006.1.p 264 REFLLQVQTIAKDRGEKCPTKVTNQVFRYAKKSGASYINKPKMRHYVHCYALHCLDEDASNTLRRAFKERGENVGSWRQACYKPLVNIAC 353 ************************************************************************************** PP FLO_LFY 350 rqgwdidavfnahprLsiWYvPtkLrqLChlerskas 386 r+gwdidavfnahprLsiWYvPtkLrqLChler++a+ Araha.9375s0006.1.p 354 RHGWDIDAVFNAHPRLSIWYVPTKLRQLCHLERNNAV 390 *******************************9975 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF01698	3.0E-202	1	389	IPR002910	Floricaula/leafy protein

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006355	Biological Process	regulation of transcription, DNA-templated
GO:0010077	Biological Process	maintenance of inflorescence meristem identity
GO:0010582	Biological Process	floral meristem determinacy
GO:0003700	Molecular Function	transcription factor activity, sequence-specific DNA binding
GO:0031490	Molecular Function	chromatin DNA binding
GO:0042803	Molecular Function	protein homodimerization activity
GO:0043565	Molecular Function	sequence-specific DNA binding
GO:0043621	Molecular Function	protein self-association

Sequence ? help Back to Top
Protein Sequence Length: 421 aa Download sequence Send to blast
MDPEGFTSGL FRWNPTRALV QAPPPVPPPP QQQPATPQTA AFGMRLGGLE GLFGAYGIRF 60 YTAAKIAELG FTASTLVGMK DEELEEMMNS LSHIFRWELL VGERYGIKAA VRAERRRLQE 120 EEEESSRRRH LLLSAAGDSG THHALDALSQ EGLSEEPVQQ QDQTDAAGNN GGGGSGYWEA 180 GQAKMKKQQQ QRRRKKPMVT SVETDDDVNE GEDDDGMDNG NGGGGGLGTE RQREHPFIVT 240 EPGEVARGKK NGLDYLFHLY EQCREFLLQV QTIAKDRGEK CPTKVTNQVF RYAKKSGASY 300 INKPKMRHYV HCYALHCLDE DASNTLRRAF KERGENVGSW RQACYKPLVN IACRHGWDID 360 AVFNAHPRLS IWYVPTKLRQ LCHLERNNAV AAAAALVGGI SCTGSSTSGR GGCGGDDLRF 420 *

Sequence ? help Back to Top

Protein Sequence Length: 421 aa Download sequence Send to blast

MDPEGFTSGL FRWNPTRALV QAPPPVPPPP QQQPATPQTA AFGMRLGGLE GLFGAYGIRF  60
YTAAKIAELG FTASTLVGMK DEELEEMMNS LSHIFRWELL VGERYGIKAA VRAERRRLQE  120
EEEESSRRRH LLLSAAGDSG THHALDALSQ EGLSEEPVQQ QDQTDAAGNN GGGGSGYWEA  180
GQAKMKKQQQ QRRRKKPMVT SVETDDDVNE GEDDDGMDNG NGGGGGLGTE RQREHPFIVT  240
EPGEVARGKK NGLDYLFHLY EQCREFLLQV QTIAKDRGEK CPTKVTNQVF RYAKKSGASY  300
INKPKMRHYV HCYALHCLDE DASNTLRRAF KERGENVGSW RQACYKPLVN IACRHGWDID  360
AVFNAHPRLS IWYVPTKLRQ LCHLERNNAV AAAAALVGGI SCTGSSTSGR GGCGGDDLRF  420
*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
2vy1_A	1e-144	227	420	1	194	PROTEIN LEAFY
2vy2_A	1e-144	227	420	1	194	PROTEIN LEAFY
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Functional Description ? help Back to Top
Source	Description
UniProt	Probable transcription factor that promotes early floral meristem identity in synergy with APETALA1. Is required subsequently for the transition of an inflorescence meristem into a floral meristem, by an immediate upstream regulation of the ABC classes of floral homeotic genes. Activates directly APETALA1, CAULIFLOWER and AGAMOUS, and indirectly APETALA3 and PISTILLATA with the cooperation of UFO. {ECO:0000269\|PubMed:8565821, ECO:0000269\|PubMed:9783581, ECO:0000269\|Ref.6}.

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00095	SELEX	Transfer from AT5G61850	Download

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Araha.9375s0006.1.p

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Positively regulated by CAULIFLOWER and APETALA1. Down-regulated by TFL1.

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	Retrieve

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	DQ447103	0.0	DQ447103.1 Arabidopsis thaliana clone pENTR221-At5g61850 floral meristem identity control protein LEAFY (At5g61850) mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	NP_200993.1	0.0	floral meristem identity control protein LEAFY (LFY)
Swissprot	Q00958	0.0	LFY_ARATH; Protein LEAFY
TrEMBL	A0A023T4L8	0.0	A0A023T4L8_ARATH; Protein leafy
TrEMBL	A0A384L7U0	0.0	A0A384L7U0_ARATH; LFY3
STRING	AT5G61850.1	0.0	(Arabidopsis thaliana)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM7907	28	41

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G61850.1	0.0	floral meristem identity control protein LEAFY (LFY)

Link Out ? help Back to Top
Phytozome	Araha.9375s0006.1.p

Publications ? help Back to Top
Chao WS,Doğramaci M,Foley ME,Horvath DP,Anderson JV Selection and validation of endogenous reference genes for qRT-PCR analysis in leafy spurge (Euphorbia esula). PLoS ONE, 2012. 7(8): p. e42839 [PMID:22916167] Yang C, et al. VAL- and AtBMI1-mediated H2Aub initiate the switch from embryonic to postgerminative growth in Arabidopsis. Curr. Biol., 2013. 23(14): p. 1324-9 [PMID:23810531] Lei HJ, et al. Identification and characterization of FaSOC1, a homolog of SUPPRESSOR OF OVEREXPRESSION OF CONSTANS1 from strawberry. Gene, 2013. 531(2): p. 158-67 [PMID:24055423] Yu Y, et al. MlWRKY12, a novel Miscanthus transcription factor, participates in pith secondary cell wall formation and promotes flowering. Plant Sci., 2013. 212: p. 1-9 [PMID:24094048] Niwa M,Endo M,Araki T Florigen is involved in axillary bud development at multiple stages in Arabidopsis. Plant Signal Behav, 2013. 8(11): p. e27167 [PMID:24305631] Fu J, et al. Photoperiodic control of FT-like gene ClFT initiates flowering in Chrysanthemum lavandulifolium. Plant Physiol. Biochem., 2014. 74: p. 230-8 [PMID:24316581] Risseeuw E, et al. An activated form of UFO alters leaf development and produces ectopic floral and inflorescence meristems. PLoS ONE, 2013. 8(12): p. e83807 [PMID:24376756] Yang Z, et al. Analyses of sequence polymorphism and haplotype diversity of LEAFY genes revealed post-domestication selection in the Chinese elite maize inbred lines. Mol. Biol. Rep., 2014. 41(2): p. 1117-25 [PMID:24381105] Chandler JW,Werr W Arabidopsis floral phytomer development: auxin response relative to biphasic modes of organ initiation. J. Exp. Bot., 2014. 65(12): p. 3097-110 [PMID:24744428] Yamaguchi N, et al. Gibberellin acts positively then negatively to control onset of flower formation in Arabidopsis. Science, 2014. 344(6184): p. 638-41 [PMID:24812402] Leal Valentim F, et al. A quantitative and dynamic model of the Arabidopsis flowering time gene regulatory network. PLoS ONE, 2015. 10(2): p. e0116973 [PMID:25719734] Chen Z, et al. Overexpression of AtAP1M3 regulates flowering time and floral development in Arabidopsis and effects key flowering-related genes in poplar. Transgenic Res., 2015. 24(4): p. 705-15 [PMID:25820621] Müller-Xing R,Schubert D,Goodrich J Non-inductive conditions expose the cryptic bract of flower phytomeres in Arabidopsis thaliana. Plant Signal Behav, 2015. 10(4): p. e1010868 [PMID:25924005] Ma X, et al. CYCLIN-DEPENDENT KINASE G2 regulates salinity stress response and salt mediated flowering in Arabidopsis thaliana. Plant Mol. Biol., 2015. 88(3): p. 287-99 [PMID:25948280] Wang C,Dehesh K From retrograde signaling to flowering time. Plant Signal Behav, 2015. 10(6): p. e1022012 [PMID:26098376] Kusters E,Della Pina S,Castel R,Souer E,Koes R Changes in cis-regulatory elements of a key floral regulator are associated with divergence of inflorescence architectures. Development, 2015. 142(16): p. 2822-31 [PMID:26220938] Andrés F, et al. Floral Induction in Arabidopsis by FLOWERING LOCUS T Requires Direct Repression of BLADE-ON-PETIOLE Genes by the Homeodomain Protein PENNYWISE. Plant Physiol., 2015. 169(3): p. 2187-99 [PMID:26417007] Yamaguchi N,Jeong CW,Nole-Wilson S,Krizek BA,Wagner D AINTEGUMENTA and AINTEGUMENTA-LIKE6/PLETHORA3 Induce LEAFY Expression in Response to Auxin to Promote the Onset of Flower Formation in Arabidopsis. Plant Physiol., 2016. 170(1): p. 283-93 [PMID:26537561] Yu Y, et al. WRKY71 accelerates flowering via the direct activation of FLOWERING LOCUS T and LEAFY in Arabidopsis thaliana. Plant J., 2016. 85(1): p. 96-106 [PMID:26643131] Fu X, et al. CHD3 chromatin-remodeling factor PICKLE regulates floral transition partially via modulating LEAFY expression at the chromatin level in Arabidopsis. Sci China Life Sci, 2016. 59(5): p. 516-28 [PMID:27056257] Yamaguchi N,Wu MF,Winter CM,Wagner D LEAFY and Polar Auxin Transport Coordinately Regulate Arabidopsis Flower Development. Plants (Basel), 2014. 3(2): p. 251-65 [PMID:27135503] Xu C,Yu Y,Zhang Y,Li Y,Wei S Gibberellins are involved in effect of near-null magnetic field on Arabidopsis flowering. Bioelectromagnetics, 2017. 38(1): p. 1-10 [PMID:27598690] Tang M, et al. An ortholog of LEAFY in Jatropha curcas regulates flowering time and floral organ development. Sci Rep, 2016. 6: p. 37306 [PMID:27869146] Wendell M, et al. Thermoperiodic Control of Floral Induction Involves Modulation of the Diurnal FLOWERING LOCUS T Expression Pattern. Plant Cell Physiol., 2017. 58(3): p. 466-477 [PMID:28028164] Monniaux M, et al. Conservation vs divergence in LEAFY and APETALA1 functions between Arabidopsis thaliana and Cardamine hirsuta. New Phytol., 2017. 216(2): p. 549-561 [PMID:28098947] Guo WY,Cui YM,Wang TT,Yu DY,Huang F Functional analysis of flower development related gene GsLFY from Glycine soja. Yi Chuan, 2017. 39(1): p. 56-65 [PMID:28115306] Dhakate P,Tyagi S,Singh A,Singh A Functional characterization of a novel Brassica LEAFY homolog from Indian mustard: Expression pattern and gain-of-function studies. Plant Sci., 2017. 258: p. 29-44 [PMID:28330561] Yang T,Du MF,Guo YH,Liu X Two LEAFY homologs ILFY1 and ILFY2 control reproductive and vegetative developments in Isoetes L. Sci Rep, 2017. 7(1): p. 225 [PMID:28331204] Goslin K, et al. Transcription Factor Interplay between LEAFY and APETALA1/CAULIFLOWER during Floral Initiation. Plant Physiol., 2017. 174(2): p. 1097-1109 [PMID:28385730] Serrano-Mislata A, et al. Regulatory interplay between LEAFY, APETALA1/CAULIFLOWER and TERMINAL FLOWER1: New insights into an old relationship. Plant Signal Behav, 2017. 12(10): p. e1370164 [PMID:28873010] Zhang GZ, et al. Ectopic expression of UGT84A2 delayed flowering by indole-3-butyric acid-mediated transcriptional repression of ARF6 and ARF8 genes in Arabidopsis. Plant Cell Rep., 2017. 36(12): p. 1995-2006 [PMID:29027578] Zhao W, et al. CsLFY is required for shoot meristem maintenance via interaction with WUSCHEL in cucumber (Cucumis sativus). New Phytol., 2018. 218(1): p. 344-356 [PMID:29274285] Dotto M,Gómez MS,Soto MS,Casati P UV-B radiation delays flowering time through changes in the PRC2 complex activity and miR156 levels in Arabidopsis thaliana. Plant Cell Environ., 2018. 41(6): p. 1394-1406 [PMID:29447428] Kumar A,Singh A,Panigrahy M,Sahoo PK,Panigrahi KCS Carbon nanoparticles influence photomorphogenesis and flowering time in Arabidopsis thaliana. Plant Cell Rep., 2018. 37(6): p. 901-912 [PMID:29541883]