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 XP_013611724.1
Organism
Brassica oleracea
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Brassica
Family C2H2
Protein Properties Length: 1158aa    MW: 130071 Da    PI: 7.6491
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_013611724.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H213.10.000310701093223
                      EET..TTTEEESSHHHHHHHHHHT CS
         zf-C2H2    2 kCp..dCgksFsrksnLkrHirtH 23  
                      +C+   Cgk F+ + +L+ H+r+H
  XP_013611724.1 1070 RCTheGCGKKFRAHKYLVLHQRVH 1093
                      588889****************99 PP
2zf-C2H211.40.00111291155123
                      EEET..TTTEEESSHHHHHHHHHH..T CS
         zf-C2H2    1 ykCp..dCgksFsrksnLkrHirt..H 23  
                      ykC+   Cg sF+  s++ rH r+  H
  XP_013611724.1 1129 YKCKvdECGLSFRFVSDYSRHRRKtgH 1155
                      99*********************9777 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM005451.1E-141757IPR003349JmjN domain
PROSITE profilePS5118314.3261859IPR003349JmjN domain
PfamPF023753.5E-161952IPR003349JmjN domain
SMARTSM005584.9E-46246415IPR003347JmjC domain
PROSITE profilePS5118435.171249415IPR003347JmjC domain
SuperFamilySSF511975.77E-26252413No hitNo description
PfamPF023731.1E-37279398IPR003347JmjC domain
SMARTSM0035517010461068IPR015880Zinc finger, C2H2-like
SMARTSM003550.05710691093IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015713.02710691098IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.606.5E-710701098IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE patternPS00028010711093IPR007087Zinc finger, C2H2
SuperFamilySSF576671.54E-1010851127No hitNo description
SMARTSM003550.009510991123IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.605.2E-1010991123IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profilePS5015712.09210991128IPR007087Zinc finger, C2H2
PROSITE patternPS00028011011123IPR007087Zinc finger, C2H2
SuperFamilySSF576674.94E-911171151No hitNo description
Gene3DG3DSA:3.30.160.609.3E-1011241152IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003554.211291155IPR015880Zinc finger, C2H2-like
PROSITE profilePS501579.95111291158IPR007087Zinc finger, C2H2
PROSITE patternPS00028011311155IPR007087Zinc 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: 1158 aa     Download sequence    Send to blast
MGSSNVEIPN WLKAMPLAPV FRPTDTEFAD PIAYISKIEK QASAFGICKI VPPIPKPSKK  60
YVFCNLNKSL LRCPELASGV DVSKRLGQED RAVFTTRQQE LGQARKKTKE GSDVKQVWQS  120
GGVYTLEQFE SKSKAFYKSL LGTVKEVSPV VVEALFWRAA SEKPVYIEYA NDVPGSAFGE  180
PEGHFRHFRQ RKRRGRGFYQ RKNGEESLPE VAKASLASPS LSSQDPTKKK NMDVVVDEME  240
GTAGWKLSNS SWNLQMIARS PGSVTRFMPD DIPGVTSPMV YIGMLFSWFA WHVEDHELHS  300
MNYLHTGSPK TWYAVPSDYA LDFEEVIRKN SYGRNIDQLA ALTQLGEKTT LVSPEMIVSS  360
DIPCCRLVQN PGEFVVTFPR SYHVGFSHGF NCGEAANFGT PQWLNVAKEA AVRRAAMNYL  420
PMLSHQQLLY LLTMSFVSRV PRSLLPGGRS SRLRDRQREE REFLVKKAFV EDILNENKNL  480
SVLLGEPGSR LVMWDPDLLP RHSALSLSAA GVATTPAVSS PAEAKSEIEN KEENPSLLEE  540
LSLFMEKLKD VYYDDDDGQL NDFQIDSGTL PCVACGVLGF PFMSVVQPSE DALKDLSERQ  600
GEIDALENKA ESSETSDCEW NTSSRYVRPR IFCLEHTIEL QRLLQSRGGL KFLVICHKDF  660
QKFKAHAAIV AEEVKVPFRY DDVLLESASK EELSLIDLAI EGEENNEHGA DWTSKLGINL  720
RYCVKVRKNS PTNKIQHALS LGGLFSDSSH VLDMSTIKWL QRKSRSKAKP CSTSCFTPRE  780
LGEKGRKDHP VLEKEEVESQ GGRKEEKIIQ YSRKKKLNPN SNRSRHDRGV DSEVNNEVGD  840
SADLTSVTRE HQGHSVTSNN LRGVDEAAEM SDQGFKEART TNANIEEEEQ SQVVLPTNRE  900
AHSSAQVGFE VAETNIASEK IVAGMVRDDE PLASNGDQAS SSGLQAADNE NSTESEVASS  960
GDTKVVVEAK KKRKIEIDSE TNDYHPESSI GFIKSPCEGL RSRGKRKVTC EKTSFNLNEA  1020
SDEEKKHTAK RLKKTPNTGS TTTQHNLCYL EGCKMTFKSK ADLAAHKRNR CTHEGCGKKF  1080
RAHKYLVLHQ RVHNDDRPFV CPWKGCSMNF KWQWARTEHL RLHTGERPYK CKVDECGLSF  1140
RFVSDYSRHR RKTGHYVT
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6ip0_A2e-68114298346Transcription factor jumonji (Jmj) family protein
6ip4_A2e-68114298346Arabidopsis JMJ13
Search in ModeBase
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}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapXP_013611724.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
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_013611724.10.0PREDICTED: probable lysine-specific demethylase ELF6
SwissprotQ6BDA00.0ELF6_ARATH; Probable lysine-specific demethylase ELF6
TrEMBLA0A0D3EHY90.0A0A0D3EHY9_BRAOL; Uncharacterized protein
STRINGBo9g181310.10.0(Brassica oleracea)
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]