PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
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(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Araha.0034s0001.1.p
Organism
Arabidopsis halleri
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis
Family C2H2
Protein Properties Length: 1340aa    MW: 149471 Da    PI: 6.8638
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Araha.0034s0001.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H211.50.0009112521274323
                           ET..TTTEEESSHHHHHHHHHHT CS
              zf-C2H2    3 Cp..dCgksFsrksnLkrHirtH 23  
                           C+   Cgk F+ + +L+ H+r+H
  Araha.0034s0001.1.p 1252 CTheGCGKKFRAHKYLVLHQRVH 1274
                           55779****************99 PP
2zf-C2H2110.001313101336123
                           EEET..TTTEEESSHHHHHHHHHH..T CS
              zf-C2H2    1 ykCp..dCgksFsrksnLkrHirt..H 23  
                           ykC+   Cg sF+  s++ rH r+  H
  Araha.0034s0001.1.p 1310 YKCKvdGCGLSFRFVSDYSRHRRKtlH 1336
                           99*********************9777 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM005451.9E-151555IPR003349JmjN domain
PROSITE profilePS5118314.161657IPR003349JmjN domain
PfamPF023757.4E-161750IPR003349JmjN domain
SMARTSM005581.5E-42262428IPR003347JmjC domain
PROSITE profilePS5118433.466262428IPR003347JmjC domain
SuperFamilySSF511973.02E-25263426No hitNo description
PfamPF023734.5E-37292411IPR003347JmjC domain
SMARTSM003556612271249IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015712.94412501279IPR007087Zinc finger, C2H2
SMARTSM003551.212501274IPR015880Zinc finger, C2H2-like
PROSITE patternPS00028012521274IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.608.5E-812521279IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576675.48E-1112661308No hitNo description
SMARTSM003550.002312801304IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.604.7E-1112801304IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profilePS5015712.79912801309IPR007087Zinc finger, C2H2
PROSITE patternPS00028012821304IPR007087Zinc finger, C2H2
SuperFamilySSF576674.18E-912981333No hitNo description
Gene3DG3DSA:3.30.160.603.4E-1013051332IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profilePS501579.86813101339IPR007087Zinc finger, C2H2
SMARTSM003550.113101336IPR015880Zinc finger, C2H2-like
PROSITE patternPS00028013121336IPR007087Zinc finger, C2H2
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009741Biological Processresponse to brassinosteroid
GO:0009826Biological Processunidimensional cell growth
GO:0033169Biological Processhistone H3-K9 demethylation
GO:0048577Biological Processnegative regulation of short-day photoperiodism, flowering
GO:0048579Biological Processnegative regulation of long-day photoperiodism, flowering
GO:0005634Cellular Componentnucleus
GO:0003676Molecular Functionnucleic acid binding
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 1340 aa     Download sequence    Send to blast
MGNVEIPNWL KALPLAPVFR PTDTEFADPI AYISKIEKEA SAFGICKIIP PLPKPSKKYV  60
FYNLNKSLLK CPELVSDVDI SKVCKEDRAV FTTRQQELGQ AVKKTKGEKS KSNSQRSGVK  120
QVWQSGGVYT LEQFETKSRT FYKSQLGTIK EVSPVAIEAL FWKAASDKPI YIEYANDVPG  180
SAFGEPDGHF RHFRQRKRRG RGFYQRKTEI NDPSGKSGEN SSPEVEKAPL ASTSLSSQDS  240
SKQKNVDIVD EMEGTAGWKL SNSSWNLQTI ARSPGSVTRF MPDDIPGVTS PMVYIGMLFS  300
WFAWHVEDHE LHSMNYLHTG SPKTWYAVPC DYALDFEEII RKNSCGRNID QLAALTQLGE  360
KTTLVSPEMI VASGIPCCRL VQNPGEFVVT FPRSYHVGFS HGFNCGEAAN FGTPQWLNVA  420
KEAAVRRAAM NYLPMLSHQQ LLYLLTMSFV SRVPRSLLPG GRSSRLRDRQ REEREFLVKR  480
AFVEDILNEN KNLSVLLREP GSRLVMWDPD LLPRHSALAL AAAGVPAASA VSPPAVATNE  540
LEEGHSELQN KEKTTLLEEL SLFMEKLNDV YYDDDDGQLN DFQVDSGTLP CVACGVLGFP  600
FMSVVQPSEK TLKDLSERQG ETDAQEITTR SSEKSDCEWK TSSRYIRPRI FCLEHSIELQ  660
RLLQSRGGLK FLVICQKDFQ KFKAHAAIVA EEVKVPFSYD DVLLESASQE ELSLIDLAIE  720
DEENYEHGVD WTSELGINLR YCVKVRKNSP TKKIQHALSL GGLFSDTSQM LDISTMRWLQ  780
RKSRSKAKPI STSSFTPREH LEVKADGKLR DNLDSHAGKK EEKIIQYSRK KKLNPKPSAE  840
QGQELAALAK SKDFDKTCNK FTNRSHLDSA IRSEMNSEIG DSGRVIGVSF SINPCSSSFT  900
VGHGQEHPEI TVKFGSALDG NVTNSSSMGN TDSADLTLTS ISREHQGHSL TSNNNGSNSG  960
SHVVASQTIL ASTDNNHGGP RKLSGDYVCS DVSVRGIQEA VEMSDQEFGE PRSTVTNIED  1020
EQQSKMVQPT KREAVSGDDA QVEGAEAVCT IENLCSEIIL HTEHSSAQVG MEIPEINTAS  1080
ENIVVDMTHD GEPLESSDIL SSSNGDQASS NGLQVLDDEL SMESEVSSSE NTEVIEAPNS  1140
IGEAKKKRKI ESESETNDNL ESSIGFIRSP CEGLRSRGKR KETCETSLKL TEMSDEERKP  1200
IAKRLKKTPK ACSGSRHQEV PATTHPNRCY LEGCKMTFES KAKLQTHKRN CCTHEGCGKK  1260
FRAHKYLVLH QRVHNDERPF ECSWKGCSMT FKWKWARTEH LRLHTGERPY KCKVDGCGLS  1320
FRFVSDYSRH RRKTLHYVT*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6ip0_A3e-55242442137346Transcription factor jumonji (Jmj) family protein
6ip4_A3e-55242442137346Arabidopsis JMJ13
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtActs probably as a histone 'Lys-4' (H3K4me) demethylase. Involved in transcriptional gene regulation. Acts as a repressor of the photoperiodic flowering pathway and of FT. Binds around the transcription start site of the FT locus. {ECO:0000269|PubMed:15377760, ECO:0000269|PubMed:18467490, ECO:0000269|PubMed:19946624}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapAraha.0034s0001.1.p
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAY6645000.0AY664500.1 Arabidopsis thaliana early flowering 6 (ELF6) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_002871082.10.0probable lysine-specific demethylase ELF6 isoform X2
SwissprotQ6BDA00.0ELF6_ARATH; Probable lysine-specific demethylase ELF6
TrEMBLD7LXG80.0D7LXG8_ARALL; Uncharacterized protein
STRINGfgenesh2_kg.6__338__AT5G04240.10.0(Arabidopsis lyrata)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM115202731
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G04240.10.0C2H2 family protein
Publications ? help Back to Top
  1. Heidari B,Nemie-Feyissa D,Kangasjärvi S,Lillo C
    Antagonistic regulation of flowering time through distinct regulatory subunits of protein phosphatase 2A.
    PLoS ONE, 2013. 8(7): p. e67987
    [PMID:23976921]
  2. Ding Y, et al.
    Four distinct types of dehydration stress memory genes in Arabidopsis thaliana.
    BMC Plant Biol., 2013. 13: p. 229
    [PMID:24377444]
  3. Crevillén P, et al.
    Epigenetic reprogramming that prevents transgenerational inheritance of the vernalized state.
    Nature, 2014. 515(7528): p. 587-90
    [PMID:25219852]
  4. Yang H,Howard M,Dean C
    Physical coupling of activation and derepression activities to maintain an active transcriptional state at FLC.
    Proc. Natl. Acad. Sci. U.S.A., 2016. 113(33): p. 9369-74
    [PMID:27482092]