PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID RrC305_p3
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: 276aa    MW: 31044.9 Da    PI: 8.1421
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC305_p3genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox55.97.3e-18123177256
                T--SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS
   Homeobox   2 rkRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56 
                rk+ +++k+q   Le+ F+++++++ +++  LAkkl+Lt rqV vWFqNrRa+ k
  RrC305_p3 123 RKKLRLSKDQSAFLEDTFKEHNTLNPKQKLALAKKLSLTARQVEVWFQNRRARTK 177
                788899***********************************************98 PP
2HD-ZIP_I/II1201.3e-38123212191
  HD-ZIP_I/II   1 ekkrrlskeqvklLEesFeeeekLeperKvelareLglqprqvavWFqnrRARtktkqlEkdyeaLkraydalkeenerLekeveeLreel 91 
                  +kk+rlsk+q+++LE++F+e+++L+p++K +la++L l++rqv+vWFqnrRARtk+kq+E+d+e+Lkr++++l+een+rL+ke  eLr +l
    RrC305_p3 123 RKKLRLSKDQSAFLEDTFKEHNTLNPKQKLALAKKLSLTARQVEVWFQNRRARTKLKQTEVDCEYLKRCVEKLTEENRRLQKEAMELR-TL 212
                  69*************************************************************************************9.44 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF046184.7E-21292IPR006712HD-ZIP protein, N-terminal
Gene3DG3DSA:1.10.10.603.6E-18104180IPR009057Homeodomain-like
SuperFamilySSF466892.61E-18106180IPR009057Homeodomain-like
PROSITE profilePS5007117.07119179IPR001356Homeobox domain
SMARTSM003891.5E-15121183IPR001356Homeobox domain
PfamPF000462.9E-15123177IPR001356Homeobox domain
CDDcd000868.24E-15123180No hitNo description
PROSITE patternPS000270154177IPR017970Homeobox, conserved site
PfamPF021833.9E-8179212IPR003106Leucine zipper, homeobox-associated
SMARTSM003401.1E-23179222IPR003106Leucine zipper, homeobox-associated
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009641Biological Processshade avoidance
GO:0009734Biological Processauxin-activated signaling pathway
GO:0009826Biological Processunidimensional cell growth
GO:0045892Biological Processnegative 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: 276 aa     Download sequence    Send to blast
MMMRKEDLGL SLSLGLSQDH TPLQLRQNPN SSISNNLPRF PWTQTFASSS DLGKIDVNSI  60
PTTVDCEEEA GVSSPNSTIS STISGGKRSE REGISDHHDD ITPDRGYSRG TSDEEEDGGE  120
TSRKKLRLSK DQSAFLEDTF KEHNTLNPKQ KLALAKKLSL TARQVEVWFQ NRRARTKLKQ  180
TEVDCEYLKR CVEKLTEENR RLQKEAMELR TLKLSPQFYG QMTPPTTLIM CPSCERVAGP  240
SPNHQHNQRP VPINPWVACA GQVAHGLNFE ALRPRS
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1121127SRKKLRL
2171179RRARTKLKQ
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor that plays a role in auxin-mediated morphogenesis. Negatively regulates lateral root elongation. {ECO:0000269|PubMed:12492842}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00550DAPTransfer from AT5G47370Download
Motif logo
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By indole-3-acetic acid (IAA). {ECO:0000269|PubMed:12492842}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAF4284500.0AF428450.1 Arabidopsis thaliana AT5g47370/MQL5_23 mRNA, complete cds.
GenBankAJ4311830.0AJ431183.1 Arabidopsis thaliana mRNA for homeodomain-leucine zipper protein HAT2 (hat2 gene).
GenBankATU093350.0U09335.1 Arabidopsis thaliana clone HAT2 homeobox protein mRNA, partial cds.
GenBankAY0523240.0AY052324.1 Arabidopsis thaliana AT5g47370/MQL5_23 mRNA, complete cds.
GenBankAY0619040.0AY061904.1 Arabidopsis thaliana AT5g47370/MQL5_23 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018461133.10.0PREDICTED: homeobox-leucine zipper protein HAT2
SwissprotP466011e-179HAT2_ARATH; Homeobox-leucine zipper protein HAT2
TrEMBLM4E8420.0M4E842_BRARP; Uncharacterized protein
STRINGBra024948.1-P0.0(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM15632690
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G47370.11e-137Homeobox-leucine zipper protein 4 (HB-4) / HD-ZIP protein
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. Zou LJ, et al.
    Role of Transcription Factor HAT1 in Modulating Arabidopsis thaliana Response to Cucumber mosaic virus.
    Plant Cell Physiol., 2016. 57(9): p. 1879-89
    [PMID:27328697]