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_06073.1_g00002.1
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: 291aa    MW: 32997.2 Da    PI: 4.5502
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Rsa1.0_06073.1_g00002.1genomeRGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox57.42.5e-1859112356
                              --SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS
                 Homeobox   3 kRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56 
                              k++++  +q+++Le+ Fe ++++  e++++LA++lgL+ rqV vWFqNrRa++k
  Rsa1.0_06073.1_g00002.1  59 KKRRLRVDQVKALEKNFELENKLEPERKTKLAQELGLQPRQVAVWFQNRRARWK 112
                              45578899*********************************************9 PP
2HD-ZIP_I/II1284e-4158150193
              HD-ZIP_I/II   1 ekkrrlskeqvklLEesFeeeekLeperKvelareLglqprqvavWFqnrRARtktkqlEkdyeaLkraydalkeenerLekevee 86 
                              ekkrrl  +qvk+LE++Fe e+kLeperK++la+eLglqprqvavWFqnrRAR+ktkqlEkdy  Lk++yd+l+++ ++L++++++
  Rsa1.0_06073.1_g00002.1  58 EKKRRLRVDQVKALEKNFELENKLEPERKTKLAQELGLQPRQVAVWFQNRRARWKTKQLEKDYGLLKSQYDSLRHNFDSLRRDNDS 143
                              69************************************************************************************ PP

              HD-ZIP_I/II  87 Lreelke 93 
                              L +e+++
  Rsa1.0_06073.1_g00002.1 144 LLQEISK 150
                              *999876 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF466891.5E-1851116IPR009057Homeodomain-like
PROSITE profilePS5007116.81154114IPR001356Homeobox domain
SMARTSM003891.5E-1657118IPR001356Homeobox domain
CDDcd000865.48E-1659115No hitNo description
PfamPF000461.4E-1559112IPR001356Homeobox domain
Gene3DG3DSA:1.10.10.602.0E-1962121IPR009057Homeodomain-like
PRINTSPR000316.6E-68594IPR000047Helix-turn-helix motif
PROSITE patternPS00027089112IPR017970Homeobox, conserved site
PRINTSPR000316.6E-694110IPR000047Helix-turn-helix motif
PfamPF021831.3E-16114155IPR003106Leucine zipper, homeobox-associated
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009637Biological Processresponse to blue light
GO:0030308Biological Processnegative regulation of cell growth
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:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0043565Molecular Functionsequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 291 aa     Download sequence    Send to blast
MMKRLSSSDS MCGLVSNSPD EQSPRGYGGN FQSMLDGYEE DGTIVEEYSG NQHMGLSEKK  60
RRLRVDQVKA LEKNFELENK LEPERKTKLA QELGLQPRQV AVWFQNRRAR WKTKQLEKDY  120
GLLKSQYDSL RHNFDSLRRD NDSLLQEISK MKGKINGEED NKPTTESDIS AVKEEEDQIP  180
SSPPQFLEHS TGFNYRRSFT DLRDLLPNPV VEAGSSDSCD SSAVLNEETS SENGRLTPAA  240
AAVTGGSFLQ FVKTEQTEDH DEFFSGEEAC GFFSDEQPPS LNWYSAPDHW T
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1106114RRARWKTKQ
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor that may function as a negative regulator of the flowering time response to photoperiod. May act to repress cell expansion during plant development. {ECO:0000269|PubMed:14623244}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00051PBMTransfer from AT4G40060Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapRsa1.0_06073.1_g00002.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK3527321e-177AK352732.1 Thellungiella halophila mRNA, complete cds, clone: RTFL01-02-C17.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018472255.10.0PREDICTED: homeobox-leucine zipper protein ATHB-16 isoform X2
SwissprotQ940J11e-180ATB16_ARATH; Homeobox-leucine zipper protein ATHB-16
TrEMBLA0A398AHA20.0A0A398AHA2_BRACM; Uncharacterized protein
STRINGBra011808.1-P0.0(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM54528143
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G40060.11e-168homeobox protein 16
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]