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 Rsa1.0_01068.1_g00006.1
Organism
Raphanus sativus
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Raphanus
Family HD-ZIP
Protein Properties Length: 264aa    MW: 30313.6 Da    PI: 5.5828
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Rsa1.0_01068.1_g00006.1genomeRGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox65.57.3e-2166119356
                              --SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS
                 Homeobox   3 kRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56 
                              k++++t+eq++ Le+ Fe ++++  e++++LAkklgL+ rqV+vWFqNrRa++k
  Rsa1.0_01068.1_g00006.1  66 KKRRLTHEQVHLLEKSFETENKLEPERKTQLAKKLGLQPRQVSVWFQNRRARWK 119
                              56689************************************************9 PP
2HD-ZIP_I/II130.95e-4266157293
              HD-ZIP_I/II   2 kkrrlskeqvklLEesFeeeekLeperKvelareLglqprqvavWFqnrRARtktkqlEkdyeaLkraydalkeenerLekeveeL 87 
                              kkrrl++eqv+lLE+sFe+e+kLeperK++la++Lglqprqv vWFqnrRAR+ktkqlE+d++ Lk++yd+l ++ +++ k++++L
  Rsa1.0_01068.1_g00006.1  66 KKRRLTHEQVHLLEKSFETENKLEPERKTQLAKKLGLQPRQVSVWFQNRRARWKTKQLERDFNLLKSSYDQLLSNYDSILKDNHHL 151
                              9************************************************************************************* PP

              HD-ZIP_I/II  88 reelke 93 
                              r+++++
  Rsa1.0_01068.1_g00006.1 152 RSQVTS 157
                              **9975 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF466891.11E-2052123IPR009057Homeodomain-like
PROSITE profilePS5007118.09161121IPR001356Homeobox domain
SMARTSM003891.1E-1964125IPR001356Homeobox domain
PfamPF000465.2E-1866119IPR001356Homeobox domain
CDDcd000861.24E-1866122No hitNo description
Gene3DG3DSA:1.10.10.601.0E-2168127IPR009057Homeodomain-like
PRINTSPR000312.8E-692101IPR000047Helix-turn-helix motif
PROSITE patternPS00027096119IPR017970Homeobox, conserved site
PRINTSPR000312.8E-6101117IPR000047Helix-turn-helix motif
PfamPF021834.6E-16121163IPR003106Leucine 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: 264 aa     Download sequence    Send to blast
MESNKFFFNP PTSHGNMFFL TNLNPVVQGS MINMEEESSK RRPFFCSPDD LLYDDVDYYD  60
DQTPDKKRRL THEQVHLLEK SFETENKLEP ERKTQLAKKL GLQPRQVSVW FQNRRARWKT  120
KQLERDFNLL KSSYDQLLSN YDSILKDNHH LRSQVTSLAG KVQAKEETAT GQVPEPNQLD  180
PVNMNPAIKT EDRLSSGSAV LDEDAPHQLR DSCDSYFPSI VPIHHHSGQD NNNNNNNNGC  240
GNDTGCFADV FVQGESFGLW GCWT
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1113121RRARWKTKQ
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription activator involved in leaf development. Binds to the DNA sequence 5'-CAAT[AT]ATTG-3'. {ECO:0000269|PubMed:8535134}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapRsa1.0_01068.1_g00006.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK3528541e-102AK352854.1 Thellungiella halophila mRNA, complete cds, clone: RTFL01-08-H09.
GenBankAK3535351e-102AK353535.1 Thellungiella halophila mRNA, complete cds, clone: RTFL01-50-D05.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018461476.10.0PREDICTED: homeobox-leucine zipper protein HAT5-like isoform X3
SwissprotQ022831e-119HAT5_ARATH; Homeobox-leucine zipper protein HAT5
TrEMBLA0A078HJS41e-159A0A078HJS4_BRANA; BnaA05g33840D protein
TrEMBLA0A397ZN191e-159A0A397ZN19_BRACM; Uncharacterized protein
TrEMBLM4FDE51e-159M4FDE5_BRARP; Uncharacterized protein
STRINGBra039116.1-P1e-160(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM88842738
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G01470.11e-119homeobox 1
Publications ? help Back to Top
  1. Ding Y, et al.
    Four distinct types of dehydration stress memory genes in Arabidopsis thaliana.
    BMC Plant Biol., 2013. 13: p. 229
    [PMID:24377444]
  2. Ribone PA,Capella M,Arce AL,Chan RL
    A uORF Represses the Transcription Factor AtHB1 in Aerial Tissues to Avoid a Deleterious Phenotype.
    Plant Physiol., 2017. 175(3): p. 1238-1253
    [PMID:28956754]