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 GSBRNA2T00018774001
Common NameGSBRNA2T00018774001, LOC106407163
Organism
Brassica napus
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Brassica
Family C2H2
Protein Properties Length: 465aa    MW: 50605.4 Da    PI: 8.3778
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSBRNA2T00018774001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H2157e-056787323
                         ETTTTEEESSHHHHHHHHHHT CS
              zf-C2H2  3 CpdCgksFsrksnLkrHirtH 23
                         C+ Cgk F r  nL+ H r H
  GSBRNA2T00018774001 67 CEVCGKGFQRDQNLQLHRRGH 87
                         *******************88 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF576674.39E-66487No hitNo description
Gene3DG3DSA:3.30.160.602.5E-56487IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profilePS5015711.516587IPR007087Zinc finger, C2H2
SMARTSM003550.0896587IPR015880Zinc finger, C2H2-like
PROSITE patternPS0002806787IPR007087Zinc finger, C2H2
SMARTSM00355220106136IPR015880Zinc finger, C2H2-like
SuperFamilySSF576674.39E-6136161No hitNo description
SMARTSM00355160141161IPR015880Zinc 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: 465 aa     Download sequence    Send to blast
MTGEVLKTVS SGSAAFAPSS STLDHDESLI NPPVVKKKRN LPGNPDPEAE VIALSPKTLM  60
ATNRFLCEVC GKGFQRDQNL QLHRRGHNLP WKLKQRTSKE VRKRVYVCPE NTCVHHDPAR  120
ALGDLTGIKK HFCRKHGEKK WTCEKCAKRY AVHSDYKAHS KTCGTREYRC DCGTIFSRRD  180
SFITHRAFCD ALAEETAKIN AASHLNGLSA AGTVGMNLNY QYLMGTLNPP LQPFVPQPPT  240
NQNHHHHFLP PPPSSSSSLS LWMGQDIAPT SQTQPQDYEW VFANAKAASG CINNNNHNDH  300
ITQTANASST TTATLSVPSL FSSDQTQSPN ANVNMSATAL LQKAAEIGAN STTATSTNPS  360
AFLKSFPLKS SDQTTTSYDD GEKFFALFGS NNNIGVVSNS HDQETENVRN DVTVASAMDE  420
LQNYPWKRRK VDGGGEGGGG GQTRDFLGVG VQTLCQPSSI NGWI*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C1e-32137206372Zinc finger protein JACKDAW
5b3h_F1e-32137206372Zinc finger protein JACKDAW
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Bna.224630.0microspore-derived embryo
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Expressed throughout development. {ECO:0000269|PubMed:21265895}.
UniprotTISSUE SPECIFICITY: Highly expressed in vegetative organs and at lower levels in flowers and siliques. Expressed predominantly in roots. In roots, present in cortex, endodermis, and pericycle layer (PubMed:25829440). {ECO:0000269|PubMed:21265895, ECO:0000269|PubMed:25829440, ECO:0000305|PubMed:21265895}.
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
PlantRegMapGSBRNA2T00018774001
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_013703417.10.0zinc finger protein NUTCRACKER
SwissprotQ9FFH30.0IDD8_ARATH; Zinc finger protein NUTCRACKER
TrEMBLA0A078GB460.0A0A078GB46_BRANA; BnaA06g36290D 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. Chalhoub B, et al.
    Plant genetics. Early allopolyploid evolution in the post-Neolithic Brassica napus oilseed genome.
    Science, 2014. 345(6199): p. 950-3
    [PMID:25146293]
  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]