PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Tp6g38510
Organism
Thellungiella parvula
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassicaceae incertae sedis; Schrenkiella
Family C2H2
Protein Properties Length: 1332aa    MW: 149386 Da    PI: 6.6094
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Tp6g38510genomethellungiellaView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H211.30.001112221245323
                 ET..TTTEEESSHHHHHHHHHH.T CS
    zf-C2H2    3 Cp..dCgksFsrksnLkrHirt.H 23  
                 C    C+++F++k +L+ H r+ +
  Tp6g38510 1222 CYleGCKMTFKSKADLQAHKRNrC 1245
                 66668***************9876 PP
2zf-C2H212.90.0003412441267223
                 EET..TTTEEESSHHHHHHHHHHT CS
    zf-C2H2    2 kCp..dCgksFsrksnLkrHirtH 23  
                 +C+   Cgk F+ + +L+ H+r+H
  Tp6g38510 1244 RCTheGCGKKFRAHKYLVLHQRVH 1267
                 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
PfamPF023757.3E-161750IPR003349JmjN domain
SuperFamilySSF511971.21E-26248433No hitNo description
SMARTSM005582.1E-47266435IPR003347JmjC domain
PROSITE profilePS5118434.711269435IPR003347JmjC domain
PfamPF023733.0E-37299418IPR003347JmjC domain
SMARTSM003554612201242IPR015880Zinc finger, C2H2-like
SMARTSM003550.05712431267IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015713.02712431272IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.608.9E-712441272IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE patternPS00028012451267IPR007087Zinc finger, C2H2
SuperFamilySSF576672.29E-1012591301No hitNo description
PROSITE profilePS5015712.09212731302IPR007087Zinc finger, C2H2
SMARTSM003550.009512731297IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.606.1E-1012731297IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE patternPS00028012751297IPR007087Zinc finger, C2H2
SuperFamilySSF576671.52E-812911325No hitNo description
Gene3DG3DSA:3.30.160.601.2E-912981326IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003550.7813031329IPR015880Zinc finger, C2H2-like
PROSITE patternPS00028013051329IPR007087Zinc 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: 1332 aa     Download sequence    Send to blast
MGNVEIPNWL KALPLAPVFR PTDTEFADPI AYISKIEKEA SAFGICKIIP PLPKPSKKYV  60
FYNLNKSLLR CPELASDVDI SKVCQEDRAV FTTRQQELGQ ARKKTKEERT IRVWQSGGVY  120
TLEQFESKSK TFYKSQLGTI KEVSPVVVEA LFWKAALEKP IYIEYANDVP GSAFGEPEGH  180
FRHFRQRKRR GRGSYQRKAG IDEDTRVENQ TDGKNSQEAS CKNGQKTLPD VAKTSLAPPS  240
LLSSQDPSKQ KKMNIVDEME GTAGWKLSNS SWNLQMIARS PGSVTRFMPD DIPGVTSPMV  300
YIGMLFSWFA WHVEDHELHS MNYLHTGSPK TWYAVPGDYA LDFEEVIRKN SYGRNIDQLA  360
SLTQLGEKTT LVSPEMIVAS DIPCCRLVQN PGEFVVTFPR SYHVGFSHGF NCGEAANFGT  420
PRWLNIAKEA AVRRAAMNYL PMLSHQQLLY LLTIVPRSLL PGGRSSRLRD RQREEREFLN  480
LSVLLREPGF RLVTWDPDLL PRHSALALAA AEGAAASAVP SPAEAKNELE EGHSGMPNKE  540
KTTLLEELSL FMEKLNDVYY DDDDGLLNDF QVDSGTLPCV ACGVLGFPFM SVVQPSENAL  600
KDLSWRQGEI DAQEIMALSS ESSDCVWNMS SRYIRPRIFC LEHTIELQKL LHSRGGLKFL  660
VICHKDFQKF KAHAAIVAEE VKVPFSYDDV PLESASKEEL SLIDLAIEDE ENNEHGVDWT  720
SKLGINLRYC VKVRKNSPTK KIQHALSLGG LFSDTNHMLD MSTIKWLQRK SRSKAQPSST  780
SSFTPREHLE VKVDRKLGEN MDSQAGRKEE KIIQYSRKKK LNPKPSGEQG QELATSAKSE  840
DFGNTCSKLA NRSHHDRAIH SEMNNETGDS ERGIGRNGVS FLENLCSSSF TGAHRQEHPE  900
ITVKFGSALD GNITNSSSMV NGDSADLTSI TREHQGHSMT SNNNGSNSCS HVVVSQTVLA  960
SIVDNHDGPI KLSAEYDCSN VSGRDVDEAV EMSDQEFEEP RYIVTNIEEE QQSQVVQPTK  1020
REAVPGDNTQ VEGEEAMCTI ENLCSEDIKH TEQQQEETHS SALLGLDIPE TNIDSEIIVV  1080
DMIRDDEVLT SRDILSSSNG DQACSNGLQA PDNDLSMESE VASSGNTEVI ETPNSHMGEA  1140
KKRKIGSESE TNDIPESSIG FIRSPCEGLR SRGRRKVTCE NLTGTSDEDK KKPTAKRLKK  1200
TPNTPSGSHR QEICTATNQN RCYLEGCKMT FKSKADLQAH KRNRCTHEGC GKKFRAHKYL  1260
VLHQRVHNDD RPFVCPWKGC SMNFKWQWAR TEHLRLHTGE RPYKCKIDGC ELSFRFVSDY  1320
SRHRRKTGHY VT
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6ip0_A1e-5594498346Transcription factor jumonji (Jmj) family protein
6ip4_A1e-5594498346Arabidopsis JMJ13
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
111731198RRKVTCENLTGTSDEDKKKPTAKRLK
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
PlantRegMapTp6g38510
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]