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 676773262
Organism
Sisymbrium irio
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Sisymbrieae; Sisymbrium
Family C2H2
Protein Properties Length: 1441aa    MW: 161678 Da    PI: 6.1793
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
676773262genomeVEGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H211.80.0007412461269323
                 ET..TTTEEESSHHHHHHHHHH.T CS
    zf-C2H2    3 Cp..dCgksFsrksnLkrHirt.H 23  
                 C    C+++F++k +L+ H r+ +
  676773262 1246 CYleGCKMTFKSKADLQAHKRNrC 1269
                 66668***************9877 PP
2zf-C2H213.90.0001612681291223
                 EET..TTTEEESSHHHHHHHHHHT CS
    zf-C2H2    2 kCp..dCgksFsrksnLkrHirtH 23  
                 +C+   Cgk F+ + +L+ H+r+H
  676773262 1268 RCTyeGCGKKFRAHKYLVLHQRVH 1291
                 588889****************99 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
PfamPF023758.0E-161750IPR003349JmjN domain
SuperFamilySSF511979.89E-27264430No hitNo description
SMARTSM005581.1E-44266432IPR003347JmjC domain
PROSITE profilePS5118434.862266432IPR003347JmjC domain
PfamPF023731.5E-37296415IPR003347JmjC domain
SMARTSM003554612441266IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015713.02712671296IPR007087Zinc finger, C2H2
SMARTSM003550.02312671291IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.605.1E-712681296IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE patternPS00028012691291IPR007087Zinc finger, C2H2
SuperFamilySSF576672.3E-1012831325No hitNo description
SMARTSM003550.01912971321IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015712.19612971326IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.601.4E-912971321IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE patternPS00028012991321IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.607.3E-913221343IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
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: 1441 aa     Download sequence    Send to blast
MGNVEIPNWL KALPLAPVFR PTDTEFADPI AYISKIEKEA SAFGICKIIP PLPKPSKKYV  60
FYNLNKSLLR CPELASDVDI SKVCQEDRAV FTTRQQELGQ ARKKTKGGEM SSSQRSGVKQ  120
VWQSGGVYTL DQFESKSKTF YKSQLGTVKE VSPVVVEALF WKAASEKPIY IEYANDVPGS  180
AFGQPVGHFR HFRQRKRRGR GFYQRKAEDT TVKSRTEGDD TQEPYFENAA KASLASPSLL  240
SQDLSKKKNM DMVDEMEGTA GWKLSNSLWN LQTIARSPGS VTRFMPDDIP GVTSPMVYIG  300
MLFSWFAWHV EDHELHSMNY LHTGSPKTWY AVPGDYALHF EEVIRKNSYG RNIDQLAALT  360
QLGEKTTLVS PEMIVGSDIP CCRLVQNPGE FVVTFPRSYH VGFSHGFNCG EAANFGTPQW  420
LNVAKEAAVR RAAMNYLPML SHQQLLYLLT MSFVSRQISV VPLYIEPVKF CWTIVPRSLL  480
PGGRSSRLRD RQREEREFLV KKAFVEDILN ENKNLSVLLR EPGFRLVMWD PDLLPRHSVL  540
ALPAAGADAT SDGTSPGEAK NELEEGYSGT QNKEKTTLLE ELSLFMEKLK DVYYDDDDGL  600
LNDFQVDSGT LACVACGILG FPFMSVVQPS ENALKDLSER QGKIDTREIT ALSSEKSDCE  660
WDTSSKYVRP RIFCLEHTIE LQRLLQSRGG VKFLVICHKD FQKFKAHAAV VAEEVKVPFS  720
YDDVLLESAS KEELNLIDIA IRDEENNEHG VDWTSKLGIN LRYCVKVRKN SPANKIQHAL  780
SLGGLFSDTS HMLDMSTIKW LQRKSRSKAI PSSTSNFAPR EYLEVEVDSK LGEKGRKDHP  840
VLEKEKVESQ AGRKEEKIIQ YSRKKKLSPK PSGEQGQELA NSSHHDGAVY SEMNNEIGDS  900
ERGVGRNGVS CSEYPCSSPF IGAHAQEHPD IAIKFGSDLG GKIPNSSSVV NGDSADLTSV  960
SREHQGDSMT SNNNGSNSSS HVVDLVVRQT MLPSTVDNHD GPINLLGEYV CSNVAVRDVD  1020
EAVEMSDQEF EEPRSTVAYI EEEQQSQVVQ RTNSQVVSGD NTQVDGEEVM CTIEKEEETQ  1080
FSAQLGLEVP ETNISSENIA VDMIHDDAPL ASRDILSSSN GDQASSNGLQ PPDNEISMES  1140
EVASSGNIEV TEAPNSNMAE AKKKRRIDSE SETNDNPGCS IGFIRSPCEG LRSRGRRKVT  1200
CEISSDITEA SDEEKKPTAK RLKKTPNTLS GSHRQEVTTT THHNRCYLEG CKMTFKSKAD  1260
LQAHKRNRCT YEGCGKKFRA HKYLVLHQRV HNDDRPFACP WKGCSMNFKW QWARTEHLRL  1320
HTGERPYKCK VDECGLSFRE GSNQPLTGYV DNDAVIAQFY QDECLELIET KHRVQENISI  1380
CSLTRPQESG LWRVKELEES GGWLERTIVE DMDQRLEIHL SQRRSYATCL SLMKLTSQQH  1440
R
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6ip0_A2e-5694628366Transcription factor jumonji (Jmj) family protein
6ip4_A2e-5694628366Arabidopsis JMJ13
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
111611165KKKRR
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
PlantRegMap676773262
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_006398879.10.0probable lysine-specific demethylase ELF6 isoform X2
SwissprotQ6BDA00.0ELF6_ARATH; Probable lysine-specific demethylase ELF6
TrEMBLV4LD480.0V4LD48_EUTSA; Uncharacterized protein
STRINGXP_006398879.10.0(Eutrema salsugineum)
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]