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 Rsa1.0_00650.1_g00005.1
Organism
Raphanus sativus
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Raphanus
Family C2H2
Protein Properties Length: 461aa    MW: 50217.2 Da    PI: 8.5939
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Rsa1.0_00650.1_g00005.1genomeRGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H2156.9e-056686323
                             ETTTTEEESSHHHHHHHHHHT CS
                  zf-C2H2  3 CpdCgksFsrksnLkrHirtH 23
                             C+ Cgk F r  nL+ H r H
  Rsa1.0_00650.1_g00005.1 66 CEVCGKGFQRDQNLQLHRRGH 86
                             *******************88 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF576676.92E-66386No hitNo description
Gene3DG3DSA:3.30.160.602.5E-56386IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003550.0896486IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015711.516486IPR007087Zinc finger, C2H2
PROSITE patternPS0002806686IPR007087Zinc finger, C2H2
SMARTSM00355240105135IPR015880Zinc finger, C2H2-like
SuperFamilySSF576676.92E-6135160No hitNo description
SMARTSM00355160140160IPR015880Zinc finger, C2H2-like
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0010150Biological Processleaf senescence
GO:0045893Biological Processpositive regulation of transcription, DNA-templated
GO:0048510Biological Processregulation of timing of transition from vegetative to reproductive phase
GO:0048573Biological Processphotoperiodism, flowering
GO:0003676Molecular Functionnucleic acid binding
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 461 aa     Download sequence    Send to blast
MTGEVLKTVS SGSAFAPSSS TLDHDESLIN PPLVKKKRNL PGNPDPEAEV IALSPKTLMA  60
TNRFLCEVCG KGFQRDQNLQ LHRRGHNLPW KLKQRTSKEV RKRVYVCPEK TCVHHDPARA  120
LGDLTGIKKH FCRKHGEKKW TCEKCAKRYA VHSDYKAHSK TCGTREYRCD CGTIFSRRDS  180
FITHRAFCDA LAEETAKINA ASHLNGLSAG GAVGMNLNYQ YLMGTLNPQL QPFVPQAPTN  240
QNHHHHFLPP PPSSSSSLSL WMGQDIPTSQ TQPQDYEWVF GNAKAASGCI NNNHDGLVTQ  300
TANASSTTTA TLSVPSLFSS DQTQSPNANV NLSATALLQK AAEIGASSTT PTSTNPSAFL  360
KSFPLKSSDQ TTTSYDGSEK FFALFGTNNN IGVVSNSHDQ EIENVRNDVT VASAMDELQN  420
YPWKRRKVDG GGEGGGGGQT RDFLGVGVQT LCHPSSINGW I
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C1e-32136205372Zinc finger protein JACKDAW
5b3h_F1e-32136205372Zinc finger protein JACKDAW
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtTranscription activator that binds to the DNA sequence 5'-CTTTTGTCC-3' (PubMed:21265895, PubMed:25929516). Regulates photoperiodic flowering by modulating sugar transport and metabolism (PubMed:21265895, PubMed:25929516). Regulates SUS1 and SUS4 (PubMed:21265895). Transcription factor that regulates tissue boundaries and asymmetric cell division (PubMed:25829440). Contributes to the sequestration of 'SHORT-ROOT' to the nucleus (PubMed:25829440). {ECO:0000269|PubMed:21265895, ECO:0000269|PubMed:25829440, ECO:0000269|PubMed:25929516}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapRsa1.0_00650.1_g00005.1
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Up-regulated by 'SHORT-ROOT' (SHR)(PubMed:16640459). Strongly down-regulated by sugar deprivation, but not regulated by day-length. {ECO:0000269|PubMed:16640459}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018478946.10.0PREDICTED: zinc finger protein NUTCRACKER
SwissprotQ9FFH30.0IDD8_ARATH; Zinc finger protein NUTCRACKER
TrEMBLA0A3P5Z4Q50.0A0A3P5Z4Q5_BRACM; Uncharacterized protein
STRINGBra033724.1-P0.0(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM37102660
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G44160.10.0C2H2-like zinc finger protein
Publications ? help Back to Top
  1. Moreno-Risueno MA, et al.
    Transcriptional control of tissue formation throughout root development.
    Science, 2015. 350(6259): p. 426-30
    [PMID:26494755]
  2. Long Y, et al.
    In vivo FRET-FLIM reveals cell-type-specific protein interactions in Arabidopsis roots.
    Nature, 2017. 548(7665): p. 97-102
    [PMID:28746306]