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 Vradi08g16780.1
Organism
Vigna radiata
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fabales; Fabaceae; Papilionoideae; Phaseoleae; Vigna
Family C2H2
Protein Properties Length: 1520aa    MW: 169197 Da    PI: 7.1908
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Vradi08g16780.1genomeSNUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H212.10.000614041429123
                       EEET..TTTEEESSHHHHHHHHHH.T CS
          zf-C2H2    1 ykCp..dCgksFsrksnLkrHirt.H 23  
                       +kC    C +sF++k +L  H r+ +
  Vradi08g16780.1 1404 HKCDldGCRMSFKTKAELLLHKRNlC 1429
                       799999****************9876 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM005456.9E-141555IPR003349JmjN domain
PROSITE profilePS5118313.8271657IPR003349JmjN domain
PfamPF023755.0E-151750IPR003349JmjN domain
PROSITE profilePS5118434.077293462IPR003347JmjC domain
SMARTSM005589.2E-46293462IPR003347JmjC domain
SuperFamilySSF511973.84E-26294460No hitNo description
PfamPF023735.1E-36326445IPR003347JmjC domain
SMARTSM003551114041426IPR015880Zinc finger, C2H2-like
SMARTSM003550.6714271451IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015712.0514271456IPR007087Zinc finger, C2H2
SuperFamilySSF576678.8E-614281464No hitNo description
Gene3DG3DSA:3.30.160.603.5E-514291455IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE patternPS00028014291451IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.601.9E-1014561481IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003550.001614571481IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015712.0314571486IPR007087Zinc finger, C2H2
PROSITE patternPS00028014591481IPR007087Zinc finger, C2H2
SuperFamilySSF576671.09E-1014671517No hitNo description
Gene3DG3DSA:3.30.160.601.4E-1014821510IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003550.6614871513IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015710.26314871518IPR007087Zinc finger, C2H2
PROSITE patternPS00028014891513IPR007087Zinc 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: 1520 aa     Download sequence    Send to blast
MGSVEIPNWL KELPLAPEFR PTDTEFADPI AYISKIEKQA ASFGICKIIP PLPKPSKKYV  60
FSNLNRSLLK CPDLGPDNSS LGVCNSLKFG SGDGSSDGVS RAVFTTRHQE LGQSQSVKKA  120
KGTVQNPQSG VHKQVWQSGE VYTLEQFESK SKSFARSLLG SVKDVSPLVI ESMFWKATLE  180
KPIYVEYAND VPGSAFEESK GQFHYSHRRL RKRTYYKSRL DSSDCKQTVM GCGRDTQIDD  240
TKGASVQSDA DKCLRMAKSV DTVSTFSSND DSQSFKEKSS DTGNDMQGTA GWKLSNSPWN  300
LQVIARSSGS LTRFMPDDIP GVTSPMVYIG MLFSWFAWHV EDHELHSMNF LHTGSSKTWY  360
AVPGDYAFAF EEVIRTEGYG GNIDHLAALK LLGEKTTLLS PEVIVASGIP CCRLTQNPGE  420
FVVTFPRAYH VGFSHGFNCG EAANFGTPQW LSVAKEAAVR RAAMNYLPML SHQQLLYLLT  480
MSFISRVPRT LLPGVRSSRL RDRQKEEREF LVKQAFIEDM LQENKLLSIL LGKEAAKRAV  540
LWNAELLPDS SKGFQLPDLT SPTGTSVANM PNISSAKKSG HYLLDDEMSL YMDSLTNIDI  600
GGDDLPYHFE TDSGALACVG CGILGFPFMA VIQPTEKLTM ELPDNHLIQV SSSDSTAGLH  660
SSISRDLSFS ELSSVKEMPD QSLNKCSKCW NTSSKFFRPR IFCLGHAVQI VDMLQSKGGA  720
NVLIICHSDY QKIKAHASEV AVEIHSAFDY NEVPLDTASP ENLTLIDLAV DGEELDECED  780
WTSTLGINLR NWVHARNNAP SKQVPWTLGT LFHDKCPASK VLALNWQSRR FRSKRSSHLT  840
QTNSSHSIER KKDDQLGGRI NDSTADKKLI QYSRRKFKSK HTCFPVANMV CELQEKSQKV  900
SATLSADHNN CVSKTLQAED LRTECALPCS SVCNEMSSMH PEIQIAEMPI STKMSAAKSQ  960
PSNSIPDHVL MIEKLGAEIE NQTKQESYVD RNNDLTVSHS KMHHNTDVSE ICGKESQDCQ  1020
YKKCSSTLSN APDGNIEMIK MTEIAEAVII DSQCNRLTLD DQGHQEYQSN YKSNNEEAAV  1080
STASMVNQST LASVDGNVES PNNNHISERI SSPIFLENAN DEGIGSISEM DKEPRINESR  1140
IRKHTPNEVC EVRRELYASV DLQSNGILDD EQQVTQGGKN SKREITHVST EQCCPSSGQC  1200
QIESVKKIEG SVCSYAAKGE NKSVTSIELG CSEVSVEACP NKDSCMQFIP DKEKEMTNQS  1260
VRIDEELFSG SDTSIKESFP SVQECSKIEN EIYVTENINE IKADLSQYKR GLESCELATE  1320
VPRLNSGNKK KRKVERTGNR SNSDNFIRSP CEGLRPRAGK FTAGKSGVEI NQVDKENQVA  1380
KRARRSSEVL VLHKNKKDGV KKSHKCDLDG CRMSFKTKAE LLLHKRNLCP HEGCGKKFSS  1440
HKYALLHQRV HDDERPLKCP WKGCSMSFKW AWARTEHIRV HTGEKPYHCK VEGCGLSFRF  1500
VSDFSRHRRK TGHHVKPPA*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6ip0_A3e-54276476137346Transcription factor jumonji (Jmj) family protein
6ip4_A3e-54276476137346Arabidopsis JMJ13
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
113281333KKKRKV
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
PlantRegMapVradi08g16780.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAP0150410.0AP015041.1 Vigna angularis var. angularis DNA, chromosome 8, almost complete sequence, cultivar: Shumari.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_014513690.10.0probable lysine-specific demethylase ELF6
SwissprotQ6BDA00.0ELF6_ARATH; Probable lysine-specific demethylase ELF6
TrEMBLA0A1S3V5X10.0A0A1S3V5X1_VIGRR; probable lysine-specific demethylase ELF6
STRINGXP_007143729.10.0(Phaseolus vulgaris)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF80313034
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]