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 Lus10037989
Organism
Linum usitatissimum
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Malpighiales; Linaceae; Linum
Family C2H2
Protein Properties Length: 1461aa    MW: 163264 Da    PI: 6.8257
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Lus10037989genomeBGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H212.40.0004813441369123
                   EEET..TTTEEESSHHHHHHHHHH.T CS
      zf-C2H2    1 ykCp..dCgksFsrksnLkrHirt.H 23  
                   +kC+   Cg++F +k++L  H r+ +
  Lus10037989 1344 HKCEieGCGMRFETKEDLALHSRNrC 1369
                   79*******************99866 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM005451.8E-131555IPR003349JmjN domain
PROSITE profilePS5118313.551657IPR003349JmjN domain
PfamPF023753.8E-141750IPR003349JmjN domain
SuperFamilySSF511971.29E-25283450No hitNo description
SMARTSM005584.2E-46283452IPR003347JmjC domain
PROSITE profilePS5118434.045286452IPR003347JmjC domain
PfamPF023734.1E-35316435IPR003347JmjC domain
Gene3DG3DSA:3.30.160.602.0E-513391366IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003559.313441366IPR015880Zinc finger, C2H2-like
SMARTSM003550.2113671391IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015710.94913671396IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.604.6E-413681395IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576676.86E-513681404No hitNo description
PROSITE patternPS00028013691391IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.606.9E-1013961421IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profilePS5015711.7813971426IPR007087Zinc finger, C2H2
SMARTSM003550.003613971421IPR015880Zinc finger, C2H2-like
PROSITE patternPS00028013991421IPR007087Zinc finger, C2H2
SuperFamilySSF576672.03E-1014071450No hitNo description
Gene3DG3DSA:3.30.160.601.4E-1014221450IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003550.914271453IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015711.07414271459IPR007087Zinc finger, C2H2
PROSITE patternPS00028014291453IPR007087Zinc finger, C2H2
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0003676Molecular Functionnucleic acid binding
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 1461 aa     Download sequence    Send to blast
MGNVEIPKWL QGLPLAPEFR PTDTEFADPI AYISKIEKEA GAFGICKIIP PLPKPSKKYV  60
FSNLNKTLAK SPELGDNCSS LKSGSGVDGR DGDMRAVFTT RHQELGQSIK KKGVEKETPQ  120
MVFHKQVWQS GEVYTLEQFE SKSKAFAKSM LGSVKEVSPL VIEALFWKAA FEKPIYVEYA  180
NDVPGSAFGE PEGQFRYFNR RRRRRASYQS YRRHGESYNC QNNELIAVDN IVPDEVVDAS  240
IKNDPSPSSL STSSTALSSR FVKSYNRKGE SSSCNVEGTA GWKLSNSPWN LQLIARSPGS  300
LTRYMPDDIP GVTSPMVYIG MLYSWFAWHV EDHELHSMNF LHTGSPKTWY SVPGDYAFSF  360
EEVIRRQAYG GKLDRLASLS RLGEKTTLLS PDVVVSSGIP CCRLIQNPGE FVVTFPRAYH  420
VGFSHGFNCG EAANFSTPQW LEVAKEAAVR RAAMNYLPML SHQQLLYLLT MSFVLRVPRS  480
LLPGARSSRL RDRQKEEREL SVKRAFIEDL LRENNTLRTI LRKGPGCKAV IWNPDLLPRA  540
SKQSQLIDTR AAATRMEENL YHTRPEHNNN STSNLFTEMS KYVESLNDLY ADGGDISCDF  600
QVDSGSLVCI ACGILGFPFM SVVQPSDKAS EESLYVDHTL ISDGKATFRR VHSSADRNGF  660
ALYLLDNPHP VPDPSPALKD LKVPTGWDIS NKFLRPRIFC LEHGLQICEL LQSRGGANML  720
VICHSDFQKM KAYATSIVEE INVPFDYTQI PLESALNEDL NLIDLAIDGH DWDGRGEDWT  780
SKMGVNLLHC VKIRKKSPST QVHHALALAG LFTEGSLSSE FSTLKWKSRR SRSRNKLNHS  840
VSFSGGKFES KKDDALEKVS DSVAKKEEKL LCYTRRKSKT KEDCSVNGGQ DRLLNRQTSR  900
VSRNSKVGIN SLEDLGVNPD GVSENHNGVQ FHEATATTTA IVNSEPSVDA TCSAVMSDPE  960
AFCNSEIRDG KTAALESSER GLNSIVATDN GLLVICKDDT ENMITYDRAS KRQLNLQVDR  1020
DGLVSETSGI ANSPSAEAEL VVAETSCTKR EACNRVTSQS EQQEEGQKWP NSNHVISSNE  1080
TVTTETITLN GEACEQLQDI SLVEDAVQQQ IETECCDDRE EMMQSKLQSA EEPDLGPLDG  1140
SGSSESVREQ IDLPVTNQEL ASSSTSEMED QPIPETMEAC CEPCATSRTD EDSSAFKNSD  1200
GELEQVNNSF DRMPECFEIR TGSEMDEESS AVRSAVEEKR SSPPHGHGSI ESASSGSIHI  1260
KVRKRRREVD QITEGNLNFK SFVRSPCERL RPRRMGRDDP STSGADLEKI PVENAVAKRS  1320
RLKRPSNDPV NNQLKKKQVT KRPHKCEIEG CGMRFETKED LALHSRNRCP YEGCRKKFSS  1380
HRYALIHQRV HDDDRPLKCP WKGCKMAFKW AWARTEHIRV HTGEKPYHCK VDGCGLAFRF  1440
VSDFSRHRRK TGHHVNSQPD *
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6ip0_A2e-55273533144405Transcription factor jumonji (Jmj) family protein
6ip4_A2e-55273533144405Arabidopsis JMJ13
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1195204RYFNRRRRRR
212621266RKRRR
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
PlantRegMapLus10037989
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankHQ8856831e-168HQ885683.1 Linum usitatissimum clone Contig1587 microsatellite sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_020532451.10.0probable lysine-specific demethylase ELF6 isoform X1
SwissprotQ6BDA00.0ELF6_ARATH; Probable lysine-specific demethylase ELF6
TrEMBLA0A2I4FAW60.0A0A2I4FAW6_JUGRE; probable lysine-specific demethylase ELF6
STRINGLus100379890.0(Linum usitatissimum)
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]