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 mrna17765.1-v1.0-hybrid
Organism
Fragaria vesca
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Rosales; Rosaceae; Rosoideae; Potentilleae; Fragariinae; Fragaria
Family C2H2
Protein Properties Length: 467aa    MW: 51174.1 Da    PI: 8.7513
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
mrna17765.1-v1.0-hybridgenomeGDRView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H215.74.2e-054969323
                             ETTTTEEESSHHHHHHHHHHT CS
                  zf-C2H2  3 CpdCgksFsrksnLkrHirtH 23
                             C++Cgk F r  nL+ H r H
  mrna17765.1-v1.0-hybrid 49 CEICGKGFQRDQNLQLHRRGH 69
                             *******************88 PP
2zf-C2H213.50.00021123145123
                              EEETTTTEEESSHHHHHHHHHHT CS
                  zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                              +kC++C+k++  +s+ k H +t+
  mrna17765.1-v1.0-hybrid 123 WKCEKCSKRYAVQSDWKAHSKTC 145
                              58*****************9998 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF576673.1E-64669No hitNo description
Gene3DG3DSA:3.30.160.604.0E-54669IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profilePS5015711.4894769IPR007087Zinc finger, C2H2
SMARTSM003550.0764769IPR015880Zinc finger, C2H2-like
PROSITE patternPS0002804969IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.601.5E-4111144IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576673.1E-6118143No hitNo description
SMARTSM00355130123143IPR015880Zinc 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:0005634Cellular Componentnucleus
GO:0044212Molecular Functiontranscription regulatory region DNA binding
GO:0046872Molecular Functionmetal ion binding
Plant Ontology ? help Back to Top
PO Term PO Category PO Description
PO:0009005anatomyroot
PO:0007134developmental stagesporophyte vegetative stage
Sequence ? help Back to Top
Protein Sequence    Length: 467 aa     Download sequence    Send to blast
MAQHEEEAID SNGFLQNPNP VAVLGSNPPP AEVIALSPKT LMATNRFLCE ICGKGFQRDQ  60
NLQLHRRGHN LPWKLKQRTS KEPRKRVYVC PEKTCVHHHA SRALGDLTGI KKHFCRKHGE  120
KKWKCEKCSK RYAVQSDWKA HSKTCGTREY KCDCGTLFSR RDSFITHRAF CDALAEETAR  180
VNAVSNIHNN AMPSNINYHH YMGNNASSLL LGPPNMSQLQ FSSIFKPISS NDTPDAMSQT  240
SRSLSLWMGQ GSNGTHEEMT ANNHHHQHQL GSVSSSAGSI FGDPNNISVS CSEPPPPSDH  300
YQLNWVLGSN NKLSPSNNAH HQDQLTITSM SSAANSLPSM YTHQMPSANM SATALLQKAA  360
QIGATSTDKT SLLGSFGLKS NNNNSTSSAS HQAVTQVQDG SKVCGLYGTA EDQGAHDHHL  420
LQHMHQAKRR HIQSEEGAGG GQTRDFLGVG VQTICHSSPI NGYWRV*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C8e-38119186370Zinc finger protein JACKDAW
5b3h_F8e-38119186370Zinc 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
PlantRegMapmrna17765.1-v1.0-hybrid
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_004303130.10.0PREDICTED: zinc finger protein NUTCRACKER
SwissprotQ9FFH31e-135IDD8_ARATH; Zinc finger protein NUTCRACKER
SwissprotQ9ZWA61e-135IDD3_ARATH; Zinc finger protein MAGPIE
TrEMBLA0A2P6RUB30.0A0A2P6RUB3_ROSCH; Putative transcription factor C2H2 family
STRINGXP_004303130.10.0(Fragaria vesca)
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
AT5G44160.11e-136C2H2-like zinc finger 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]