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 GSBRNA2T00092034001
Common NameGSBRNA2T00092034001
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 HD-ZIP
Protein Properties Length: 163aa    MW: 18275.6 Da    PI: 9.7038
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSBRNA2T00092034001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox59.74.8e-1973126356
                          --SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS
             Homeobox   3 kRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56 
                          k+++++  q+++Le+ Fe ++++  e++ +LA++lgL+ rqV +WFqNrRa++k
  GSBRNA2T00092034001  73 KKRRLSVVQVKALEKNFEIDNKLEPERKVKLAQELGLQPRQVAIWFQNRRARWK 126
                          55689999*********************************************9 PP
2HD-ZIP_I/II126.89.3e-4172161190
          HD-ZIP_I/II   1 ekkrrlskeqvklLEesFeeeekLeperKvelareLglqprqvavWFqnrRARtktkqlEkdyeaLkraydalkeenerLekeveeLree 90 
                          ekkrrls  qvk+LE++Fe ++kLeperKv+la+eLglqprqva+WFqnrRAR+ktkqlE+dy +Lk+++d+lk+++++L+++++ L +e
  GSBRNA2T00092034001  72 EKKRRLSVVQVKALEKNFEIDNKLEPERKVKLAQELGLQPRQVAIWFQNRRARWKTKQLERDYGVLKSNFDSLKRSRDSLQRDNDYLLAE 161
                          69**********************************************************************************999866 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF466898.55E-2066130IPR009057Homeodomain-like
PROSITE profilePS5007117.24868128IPR001356Homeobox domain
SMARTSM003895.4E-1871132IPR001356Homeobox domain
PfamPF000463.0E-1673126IPR001356Homeobox domain
CDDcd000863.64E-1773129No hitNo description
Gene3DG3DSA:1.10.10.603.7E-2075135IPR009057Homeodomain-like
PRINTSPR000312.9E-699108IPR000047Helix-turn-helix motif
PROSITE patternPS000270103126IPR017970Homeobox, conserved site
PRINTSPR000312.9E-6108124IPR000047Helix-turn-helix motif
PfamPF021839.9E-14128162IPR003106Leucine zipper, homeobox-associated
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0005634Cellular Componentnucleus
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0043565Molecular Functionsequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 163 aa     Download sequence    Send to blast
MKRSRGSSDS LSGFLPICHS TADKQLSPRP TATGFLYPGS AGDYSQMFDG LEEDGSLEDI  60
GVGHASSTAA AEKKRRLSVV QVKALEKNFE IDNKLEPERK VKLAQELGLQ PRQVAIWFQN  120
RRARWKTKQL ERDYGVLKSN FDSLKRSRDS LQRDNDYLLA EV*
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1120128RRARWKTKQ
2141146DSLKRS
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Bna.213331e-157flower
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Localized primarily to the hypocotyl of germinating seedlings. {ECO:0000269|PubMed:12678559}.
UniprotTISSUE SPECIFICITY: Widely expressed. {ECO:0000269|PubMed:16055682}.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor that acts as a positive regulator of ABA-responsiveness, mediating the inhibitory effect of ABA on growth during seedling establishment. Binds to the DNA sequence 5'-CAATNATTG-3'. {ECO:0000269|PubMed:12678559}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapGSBRNA2T00092034001
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Down-regulated by abscisic acid (ABA) and by salt stress. {ECO:0000269|PubMed:12678559, ECO:0000269|PubMed:16055682}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK3532471e-169AK353247.1 Thellungiella halophila mRNA, complete cds, clone: RTFL01-23-D07.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_013674542.11e-115homeobox-leucine zipper protein ATHB-5-like
RefseqXP_013678431.11e-115homeobox-leucine zipper protein ATHB-5
SwissprotP466676e-97ATHB5_ARATH; Homeobox-leucine zipper protein ATHB-5
TrEMBLA0A078H8T31e-113A0A078H8T3_BRANA; BnaC02g43700D protein
TrEMBLA0A078IG201e-115A0A078IG20_BRANA; BnaA08g04720D protein
STRINGBra031866.1-P1e-112(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM129861526
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G65310.13e-99homeobox protein 5
Publications ? help Back to Top
  1. Cassan-Wang H, et al.
    Identification of novel transcription factors regulating secondary cell wall formation in Arabidopsis.
    Front Plant Sci, 2013. 4: p. 189
    [PMID:23781226]
  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. 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]
  4. Song L, et al.
    A transcription factor hierarchy defines an environmental stress response network.
    Science, 2017.
    [PMID:27811239]
  5. Stamm P, et al.
    The Transcription Factor ATHB5 Affects GA-Mediated Plasticity in Hypocotyl Cell Growth during Seed Germination.
    Plant Physiol., 2017. 173(1): p. 907-917
    [PMID:27872245]