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 GSVIVT01016246001
Organism
Vitis vinifera
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; rosids incertae sedis; Vitales; Vitaceae; Vitis
Family C2H2
Protein Properties Length: 1551aa    MW: 171588 Da    PI: 6.9233
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSVIVT01016246001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H211.30.00112701295123
                         EEET..TTTEEESSHHHHHHHHHH.T CS
            zf-C2H2    1 ykCp..dCgksFsrksnLkrHirt.H 23  
                         ++C    C +sF++k +L  H r+ +
  GSVIVT01016246001 1270 HRCDleGCRMSFKTKAELLLHKRNrC 1295
                         789999****************9876 PP
2zf-C2H211.60.0008813531379123
                         EEET..TTTEEESSHHHHHHHHHH..T CS
            zf-C2H2    1 ykCp..dCgksFsrksnLkrHirt..H 23  
                         y+C+   Cg sF+  s++ rH r+  H
  GSVIVT01016246001 1353 YQCKveGCGLSFRFVSDFSRHRRKtgH 1379
                         99*********************9777 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM005451.5E-145191IPR003349JmjN domain
PROSITE profilePS5118313.735293IPR003349JmjN domain
PfamPF023752.4E-145386IPR003349JmjN domain
SuperFamilySSF511974.67E-27244421No hitNo description
SMARTSM005588.2E-46255424IPR003347JmjC domain
PROSITE profilePS5118434.426258424IPR003347JmjC domain
PfamPF023731.5E-35288407IPR003347JmjC domain
SMARTSM003551312701292IPR015880Zinc finger, C2H2-like
SuperFamilySSF576675.72E-712811330No hitNo description
SMARTSM003550.1212931317IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015712.52812931322IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.603.5E-512941317IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE patternPS00028012951317IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.607.1E-1013181345IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003550.00213231347IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015711.01113231352IPR007087Zinc finger, C2H2
PROSITE patternPS00028013251347IPR007087Zinc finger, C2H2
SuperFamilySSF576671.88E-913331375No hitNo description
Gene3DG3DSA:3.30.160.607.1E-1013461376IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003550.2313531379IPR015880Zinc finger, C2H2-like
PROSITE profilePS501579.47313531384IPR007087Zinc finger, C2H2
PROSITE patternPS00028013551379IPR007087Zinc 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: 1551 aa     Download sequence    Send to blast
MSRKCHVNQI PEAIPISAQL KSYGTENSNS KPCDVSHRRS VIPIWLKGLP LAPEFRPTDT  60
EFADPIAYIS KIEKEASAFG ICKVIPPLPK PSKRYVISNL NKSLSKCPEL GSDVNASTVC  120
SSAKMGSGDG DADGEARAVF TTRHQELGQN LKRTKGVVQP QAGVHKQVWQ SGEIYTLEQF  180
ESKSKAFARN LLGMIKEVSP LVVEAMFWKA ASEKPIYVEY ANDVPGSGFG EPEDETSRQK  240
NLNGSNEMEG TAGWKLSNSP WNLQVIARSP GSLTRFMPDD IPGVTSPMVY IGMLFSWFAW  300
HVEDHELHSL NFLHTGSPKT WYAVPGDYAF AFEEVIRSQA YGGNIDRLAA LTLLGEKTTL  360
LSPEVVVASG IPCCRLIQNP GEFVVTFPRA YHVGFSHGFN CGEAANFGTP QWLKIAKEAA  420
VRRAAMSYLP MLSHQQLLYL LTMSFVSRVP RSLIPGARSS RLKDRQKEER ELLVKQAFIE  480
DMLNENNLLS VLLGKGSTYR AVLWDPESLP SSTKEPQLST EITTVSTKPR ENISEVENKD  540
DSNQNDLFDK MSLYIENVND LYLDDDDLLC DFQVDSGTLA CVACGILGFP FMSVVQPSDR  600
ASMEFLHADH PLVEDRAGDT ETMKSYCPSA VHGTSKGPVS DETTKEEISS AILMTENLKC  660
RKDLKLIKDG KESSIDANSL SSESLQMPLI TNFEKGWNKS TELLRPRIFC LEHAVQIKEL  720
LQPKGGASML IICHSDYQKI KAHATTVAEE IGHPFNYNEI PLDTASQEDL NLINLAIDDE  780
EHVECGEDWT SKLGINLQYC VKIRKNSPSK QVPHALALGG LFTDTTSSSN FLSLKWQSRK  840
SRSKLKSNLP SHIKPYESNQ IKEVEVMEGK SVGSTIRKED KLIQYSRRIF KFKSGGAEGA  900
SRARGRPRKN LPKDVSATSC DIVKNISRTS NNSPNIEKEG GESAGLDFYA SFGKSEMLHE  960
VQVLEATEDL SKNAVPAQVI NPLVTATPVV KSVEARINNQ TLEDEACNSV TCDGSEMPLE  1020
INITEVTGEK NKILGAENDS TLPIISVPTV EKSGIQMDHQ IMEEVNMTNE PGNLTQYNSE  1080
GQHGIQGDGD VLMNEVSDCD NFTSSHGPVG EGFDAQIENV VIEESCTNGE IGECMILDKE  1140
ASEQGILIAD GSGDEEHILS NDAMTNQPPP PSTVESSEIP REICPVNPKS TKKAERKRKR  1200
EGGQKTEDKF YFDSFIRSPC EGLRPRAKKD GSTGADTNKP VVEKPMAKTR KPADTSGPHK  1260
DKKENTKGSH RCDLEGCRMS FKTKAELLLH KRNRCPHEGC GKKFSSHKYA MLHQRVHDDE  1320
RPLKCPWKGC SMSFKWAWAR TEHVRVHTGA RPYQCKVEGC GLSFRFVSDF SRHRRKTGHY  1380
VNNTPKRKQW QPPRHLLHQL QRPPHPQHCL RLAPSEIQSS PESESLTHPM FAPSTSSCTS  1440
SPSSSASPTF SPPLSPPFHP TSSTLLLSNP SPSSSLKIRI GRRRRGGRVR AVFPKLFDVL  1500
GEARVLYRGF VCQGLLQEER VWEDVVVCGG SSGGENGVWE SGVVRCNTSK *
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6ip0_A6e-70454388346Transcription factor jumonji (Jmj) family protein
6ip4_A6e-70454388346Arabidopsis JMJ13
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Vvi.289390.0fruit
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed at low levels in cotyledons and leaves. Detected in inflorescences, stems, roots and siliques but not in shoot apical meristems or root tips. {ECO:0000269|PubMed:15377760, ECO:0000269|PubMed:18713399}.
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}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAM4626220.0AM462622.1 Vitis vinifera, whole genome shotgun sequence, contig VV78X056606.11, clone ENTAV 115.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_010658392.10.0PREDICTED: probable lysine-specific demethylase ELF6 isoform X2
SwissprotQ6BDA00.0ELF6_ARATH; Probable lysine-specific demethylase ELF6
TrEMBLF6HNE90.0F6HNE9_VITVI; Uncharacterized protein
STRINGVIT_13s0019g04530.t010.0(Vitis vinifera)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
Representative plantOGRP75061114
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]