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 XP_009150623.1
Organism
Brassica rapa
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: 305aa    MW: 34211.3 Da    PI: 4.8167
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_009150623.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox59.84.3e-1971124356
                     --SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS
        Homeobox   3 kRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56 
                     k+++++ eq+++Le+ Fe ++++  e++ +LA++lgL+ rqV +WFqNrRa++k
  XP_009150623.1  71 KKRRLSVEQVKALEKNFEIDNKLEPERKVKLAQELGLQPRQVAIWFQNRRARWK 124
                     56689************************************************9 PP
2HD-ZIP_I/II131.24.1e-4270162193
     HD-ZIP_I/II   1 ekkrrlskeqvklLEesFeeeekLeperKvelareLglqprqvavWFqnrRARtktkqlEkdyeaLkraydalkeenerLekeveeLreelke 93 
                     ekkrrls eqvk+LE++Fe ++kLeperKv+la+eLglqprqva+WFqnrRAR+ktkqlE+dy +Lk+++d+lk+++++L++++++L++e+k+
  XP_009150623.1  70 EKKRRLSVEQVKALEKNFEIDNKLEPERKVKLAQELGLQPRQVAIWFQNRRARWKTKQLERDYGVLKSNFDSLKRSRDSLQRDNDSLHAEIKQ 162
                     69****************************************************************************************987 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF466898.77E-2062128IPR009057Homeodomain-like
PROSITE profilePS5007117.79966126IPR001356Homeobox domain
SMARTSM003891.2E-1869130IPR001356Homeobox domain
CDDcd000866.40E-1871127No hitNo description
PfamPF000462.9E-1671124IPR001356Homeobox domain
Gene3DG3DSA:1.10.10.602.8E-2073133IPR009057Homeodomain-like
PRINTSPR000317.5E-697106IPR000047Helix-turn-helix motif
PROSITE patternPS000270101124IPR017970Homeobox, conserved site
PRINTSPR000317.5E-6106122IPR000047Helix-turn-helix motif
PfamPF021831.5E-17126167IPR003106Leucine zipper, homeobox-associated
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0043565Molecular Functionsequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 305 aa     Download sequence    Send to blast
MKRSRGSSDS LSRFLPICHS ATDNQLSPRP TATGFLYSGT GDYSPMFDCL EDGSLEDIAV  60
GHASSTAATE KKRRLSVEQV KALEKNFEID NKLEPERKVK LAQELGLQPR QVAIWFQNRR  120
ARWKTKQLER DYGVLKSNFD SLKRSRDSLQ RDNDSLHAEI KQLRAKLNVD GISRSSSNAS  180
TEENVLVKAD ETVMPSNKVL ELNQRPLPPP PHIPTATEAP ALELEYEMLS IFPRAEIFRE  240
DPADSSDSSA ILNEEYSPTA AEAAAAVEMS TMGCFGQFVK MEEHEDLFSG EEACKLFADN  300
EQWYC
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1118126RRARWKTKQ
2139144DSLKRS
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Bra.29580.0bud| leaf| root
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
PlantRegMapXP_009150623.1
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-156AK353247.1 Thellungiella halophila mRNA, complete cds, clone: RTFL01-23-D07.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_009150623.10.0PREDICTED: homeobox-leucine zipper protein ATHB-5-like
SwissprotP466671e-157ATHB5_ARATH; Homeobox-leucine zipper protein ATHB-5
TrEMBLM4E6H30.0M4E6H3_BRARP; Uncharacterized protein
STRINGBra024377.1-P0.0(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
AT5G65310.11e-148homeobox 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. Song L, et al.
    A transcription factor hierarchy defines an environmental stress response network.
    Science, 2017.
    [PMID:27811239]
  4. 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]