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 RrC5542_p2
Organism
Raphanus raphanistrum
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: 306aa    MW: 34691.1 Da    PI: 4.3398
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC5542_p2genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox58.21.4e-1862115356
                 --SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS
    Homeobox   3 kRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56 
                 k+++++ +q+++Le+ Fe ++++  e++ +LA++lgL+ rqV vWFqNrRa++k
  RrC5542_p2  62 KKRRLSVNQVKALEKNFELENKLEPERKVKLAQELGLQPRQVAVWFQNRRARWK 115
                 566899***********************************************9 PP
2HD-ZIP_I/II129.51.4e-4161153193
  HD-ZIP_I/II   1 ekkrrlskeqvklLEesFeeeekLeperKvelareLglqprqvavWFqnrRARtktkqlEkdyeaLkraydalkeenerLekeveeLreelke 93 
                  ekkrrls +qvk+LE++Fe e+kLeperKv+la+eLglqprqvavWFqnrRAR+ktkqlEkdy +Lk++yd+l+++ ++L++++e+L +e+++
   RrC5542_p2  61 EKKRRLSVNQVKALEKNFELENKLEPERKVKLAQELGLQPRQVAVWFQNRRARWKTKQLEKDYGVLKTQYDSLRHNFDSLRRDNESLLQEISK 153
                  69*************************************************************************************999976 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5007117.0757117IPR001356Homeobox domain
SuperFamilySSF466892.63E-1860119IPR009057Homeodomain-like
SMARTSM003892.6E-1760121IPR001356Homeobox domain
PfamPF000468.3E-1662115IPR001356Homeobox domain
CDDcd000862.46E-1562118No hitNo description
Gene3DG3DSA:1.10.10.609.4E-2064124IPR009057Homeodomain-like
PRINTSPR000318.4E-68897IPR000047Helix-turn-helix motif
PROSITE patternPS00027092115IPR017970Homeobox, conserved site
PRINTSPR000318.4E-697113IPR000047Helix-turn-helix motif
PfamPF021834.0E-17117158IPR003106Leucine zipper, homeobox-associated
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009414Biological Processresponse to water deprivation
GO:0009788Biological Processnegative regulation of abscisic acid-activated signaling pathway
GO:0045893Biological Processpositive regulation 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: 306 aa     Download sequence    Send to blast
MMKRLSSSDS VGGLISLCPT TSTDQQSPRR YGREFQSMLE GYEEEDEEAI IEERGQTGLA  60
EKKRRLSVNQ VKALEKNFEL ENKLEPERKV KLAQELGLQP RQVAVWFQNR RARWKTKQLE  120
KDYGVLKTQY DSLRHNFDSL RRDNESLLQE ISKLKSKLNG EEEEEEEENN AVTTESEFSV  180
KEEEVSLPEN ITEPPSSPPQ LLEHSDSFNY RSFTDLRDLL PLKASLAAAA AGSSDSSDSS  240
AVMNEESSSN VTVAPTTVPG GGFFQFVKTE QTEDHDDFLS GEEACGFFSD EQPPSLHWYS  300
TVDQWT
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1109117RRARWKTKQ
Functional Description ? help Back to Top
Source Description
UniProtTranscription activator that may act as growth regulators in response to water deficit. Interacts with the core sequence 5'-CAATTATTA-3' of promoters in response to ABA and in an ABI1-dependent manner. Involved in the negative regulation of the ABA signaling pathway. {ECO:0000269|PubMed:10527431, ECO:0000269|PubMed:12065416}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00271DAPTransfer from AT2G22430Download
Motif logo
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By water deficit, by abscisic acid (ABA) and by salt stress. Self expression regulation. {ECO:0000269|PubMed:10527431, ECO:0000269|PubMed:12065416, ECO:0000269|PubMed:16055682}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAY3361030.0AY336103.1 Brassica napus homeodomain-leucine zipper protein mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqNP_001302743.11e-175homeobox-leucine zipper protein ATHB-6-like
RefseqXP_006404700.11e-175homeobox-leucine zipper protein ATHB-6
RefseqXP_009112528.11e-175PREDICTED: homeobox-leucine zipper protein ATHB-6
RefseqXP_013605522.11e-175PREDICTED: homeobox-leucine zipper protein ATHB-6-like
SwissprotP466681e-169ATHB6_ARATH; Homeobox-leucine zipper protein ATHB-6
TrEMBLA0A397YAL81e-175A0A397YAL8_BRACM; Uncharacterized protein
STRINGBra038523.1-P1e-175(Brassica rapa)
STRINGBo8g101130.11e-175(Brassica oleracea)
STRINGXP_006404700.11e-175(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
AT2G22430.11e-139homeobox protein 6
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. Song L, et al.
    A transcription factor hierarchy defines an environmental stress response network.
    Science, 2017.
    [PMID:27811239]