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 Tp57577_TGAC_v2_mRNA14742
Organism
Trifolium pratense
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fabales; Fabaceae; Papilionoideae; Trifolieae; Trifolium
Family C2H2
Protein Properties Length: 479aa    MW: 53178.4 Da    PI: 9.2252
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Tp57577_TGAC_v2_mRNA14742genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H214.69.6e-056383323
                               ETTTTEEESSHHHHHHHHHHT CS
                    zf-C2H2  3 CpdCgksFsrksnLkrHirtH 23
                               C+ Cgk F r  nL+ H r H
  Tp57577_TGAC_v2_mRNA14742 63 CETCGKGFQRDQNLQLHRRGH 83
                               *******************88 PP
2zf-C2H213.50.00022137159123
                                EEETTTTEEESSHHHHHHHHHHT CS
                    zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                                +kC++C+k++  +s+ k H +t+
  Tp57577_TGAC_v2_mRNA14742 137 WKCEKCSKRYAVQSDWKAHSKTC 159
                                58*****************9998 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF576671.14E-66083No hitNo description
Gene3DG3DSA:3.30.160.608.5E-56183IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profilePS5015711.5936183IPR007087Zinc finger, C2H2
PROSITE patternPS0002806383IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.601.6E-4125158IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576671.14E-6132157No hitNo description
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:0005634Cellular Componentnucleus
GO:0044212Molecular Functiontranscription regulatory region DNA binding
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 479 aa     Download sequence    Send to blast
MLKKMDEVEI TNGNNFPQNP TTSASNNPPT LKRKRNLPGN PDPEAEVIAL SPKTLMATNR  60
FLCETCGKGF QRDQNLQLHR RGHNLPWKLK QRTNKEIKKR VYVCPEKSCV HHDPSRALGD  120
LTGIKKHFCR KHGEKKWKCE KCSKRYAVQS DWKAHSKTCG TREYKCDCGT IFSRRDSFIT  180
HRAFCDALAE ETARVSAASE INNSLLRGNI GNYNIMGTTT SLIPTNNMSN HFSSIFKPIA  240
TPPPDHHHHE SINQTRGLSL WMNQNQTSHE TMVTTNGNSN LHEIHQQQQQ HDTSSRGLIY  300
DNPNSNNYQL NWVFGNKFSS NCNQKLITST TTSLPLGNIN VNIKDVTSQQ ISSPLYSSQH  360
QIQSHQTSSA NMSATALLQK AAQIGSASSD TSFLGSLGLK CSNNNNIGGN SGMHGTTSSL  420
LISLANEEDH NTACDFTQMQ PSKRRHVQSD ENGGGHTRDF LGVGVQTICH PSSINGWI*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C1e-36133199369Zinc finger protein JACKDAW
5b3h_F1e-36133199369Zinc 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}.
UniProtTranscription factor that regulates tissue boundaries and asymmetric cell division (PubMed:17785527, PubMed:25829440). Contributes to the sequestration of 'SHORT-ROOT' to the nucleus (PubMed:17785527, PubMed:25829440). Interacts with the SCR and MGP promoters (PubMed:21935722). Does not show transcription activity by itself, but regulates the transcription of downstream genes through interaction with other transcription factors (PubMed:21935722). Binds DNA via its zinc fingers (PubMed:24821766). Recognizes and binds to SCL3 promoter sequence 5'-AGACAA-3' to promotes its expression when in complex with RGA (PubMed:24821766). Positively involved in gibberellic acid (GA) signaling (PubMed:24821766). {ECO:0000269|PubMed:17785527, ECO:0000269|PubMed:21935722, ECO:0000269|PubMed:24821766, ECO:0000269|PubMed:25829440}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00125DAPTransfer from AT1G03840Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapTp57577_TGAC_v2_mRNA14742
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}.
UniProtINDUCTION: Up-regulated by the transcription factor JKD, and down-regulated by SHR, SCR and itself. {ECO:0000269|PubMed:21935722}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_024638423.10.0zinc finger protein MAGPIE-like
SwissprotQ9FFH31e-148IDD8_ARATH; Zinc finger protein NUTCRACKER
SwissprotQ9ZWA61e-148IDD3_ARATH; Zinc finger protein MAGPIE
TrEMBLA0A396IAJ30.0A0A396IAJ3_MEDTR; Putative transcription factor C2H2 family
STRINGGLYMA12G13810.10.0(Glycine max)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF46262951
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G03840.11e-146C2H2 family protein
Publications ? help Back to Top
  1. Muñoz-Strale D,León G
    Identification of two highly specific pollen promoters using transcriptomic data.
    Plant Physiol. Biochem., 2014. 83: p. 292-9
    [PMID:25208507]
  2. Moreno-Risueno MA, et al.
    Transcriptional control of tissue formation throughout root development.
    Science, 2015. 350(6259): p. 426-30
    [PMID:26494755]
  3. 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]