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_02161.1_g00005.1
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: 289aa    MW: 32977.4 Da    PI: 4.8893
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Rsa1.0_02161.1_g00005.1genomeRGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox57.42.4e-1859112356
                              --SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS
                 Homeobox   3 kRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56 
                              k++++  +q+++Le+ Fe ++++  e++++LA++lgL+ rqV vWFqNrRa++k
  Rsa1.0_02161.1_g00005.1  59 KKRRLRVDQVKALEKNFELENKLEPERKTKLAQELGLQPRQVAVWFQNRRARWK 112
                              45578899*********************************************9 PP
2HD-ZIP_I/II125.72.1e-4058149192
              HD-ZIP_I/II   1 ekkrrlskeqvklLEesFeeeekLeperKvelareLglqprqvavWFqnrRARtktkqlEkdyeaLkraydalkeenerLekevee 86 
                              ekkrrl  +qvk+LE++Fe e+kLeperK++la+eLglqprqvavWFqnrRAR+ktkqlEkdy  Lk++yd+l+++ ++L +++e+
  Rsa1.0_02161.1_g00005.1  58 EKKRRLRVDQVKALEKNFELENKLEPERKTKLAQELGLQPRQVAVWFQNRRARWKTKQLEKDYGLLKSQYDSLRHSFDSLLRDNES 143
                              69************************************************************************************ PP

              HD-ZIP_I/II  87 Lreelk 92 
                              L  +++
  Rsa1.0_02161.1_g00005.1 144 LVLKIS 149
                              997776 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF466895.43E-1947116IPR009057Homeodomain-like
PROSITE profilePS5007117.23254114IPR001356Homeobox domain
SMARTSM003891.5E-1657118IPR001356Homeobox domain
CDDcd000866.08E-1659115No hitNo description
PfamPF000461.3E-1559112IPR001356Homeobox domain
Gene3DG3DSA:1.10.10.602.0E-1962121IPR009057Homeodomain-like
PRINTSPR000316.5E-68594IPR000047Helix-turn-helix motif
PROSITE patternPS00027089112IPR017970Homeobox, conserved site
PRINTSPR000316.5E-694110IPR000047Helix-turn-helix motif
PfamPF021836.0E-16114155IPR003106Leucine 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: 289 aa     Download sequence    Send to blast
MKRLSRSDSM CGLISNSTDE QSRRGYGHNF QPMLDGYEED STMVEEYSGN HHHMGQSEKK  60
RRLRVDQVKA LEKNFELENK LEPERKTKLA QELGLQPRQV AVWFQNRRAR WKTKQLEKDY  120
GLLKSQYDSL RHSFDSLLRD NESLVLKISE LKAKINDGEE DDNNKVTAES DISAVKEENV  180
PPSPPEFIEH STGFNYRRSF TDLRDLLPNS TAVVDGGFSD SCDSSAVFND ETSSDNGRLT  240
PPPPQPPTVT GGSFLRFVKT ERMEDHDDFL SGEEACGLFS DEQPPSLHW
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}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapRsa1.0_02161.1_g00005.1
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-139AK352732.1 Thellungiella halophila mRNA, complete cds, clone: RTFL01-02-C17.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018449254.10.0PREDICTED: homeobox-leucine zipper protein ATHB-16-like
SwissprotQ940J11e-166ATB16_ARATH; Homeobox-leucine zipper protein ATHB-16
TrEMBLE4MW351e-166E4MW35_EUTHA; mRNA, clone: RTFL01-02-C17
TrEMBLV4MKN01e-166V4MKN0_EUTSA; Uncharacterized protein
STRINGXP_006411810.11e-167(Eutrema salsugineum)
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-151homeobox 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]