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 RrC5809_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: 266aa    MW: 29863.5 Da    PI: 8.383
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC5809_p3genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox55.97.1e-18112166256
                 T--SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS
    Homeobox   2 rkRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56 
                 rk+ +++k+q   Lee F+++++++ +++  LAkkl++t+rqV vWFqNrRa+ k
  RrC5809_p3 112 RKKLRLSKNQSAFLEETFKEHNTLNPKQKLALAKKLNMTTRQVEVWFQNRRARTK 166
                 788899***********************************************98 PP
2HD-ZIP_I/II118.44e-38112201191
  HD-ZIP_I/II   1 ekkrrlskeqvklLEesFeeeekLeperKvelareLglqprqvavWFqnrRARtktkqlEkdyeaLkraydalkeenerLekeveeLreel 91 
                  +kk+rlsk+q+++LEe+F+e+++L+p++K +la++L++++rqv+vWFqnrRARtk+kq+E+d+e+Lkr++++l+een+rL+ke  eLr +l
   RrC5809_p3 112 RKKLRLSKNQSAFLEETFKEHNTLNPKQKLALAKKLNMTTRQVEVWFQNRRARTKLKQTEMDCEYLKRCVEKLTEENRRLQKEAMELR-TL 201
                  69*************************************************************************************9.44 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF046183.6E-17285IPR006712HD-ZIP protein, N-terminal
Gene3DG3DSA:1.10.10.605.2E-1891166IPR009057Homeodomain-like
SuperFamilySSF466892.22E-18100169IPR009057Homeodomain-like
PROSITE profilePS5007117.022108168IPR001356Homeobox domain
SMARTSM003898.1E-16110172IPR001356Homeobox domain
PfamPF000462.5E-15112166IPR001356Homeobox domain
CDDcd000868.53E-16112169No hitNo description
PROSITE patternPS000270143166IPR017970Homeobox, conserved site
PfamPF021837.0E-8168201IPR003106Leucine zipper, homeobox-associated
SMARTSM003402.7E-23168211IPR003106Leucine zipper, homeobox-associated
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation 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: 266 aa     Download sequence    Send to blast
MMMGEEDLGL SLSLGFPQNH NPSSSISNEH HRFPWNQTFA YTSDLRKLDV NTLPSTVGCE  60
EEAGVSSPNS TISSTISGGK RNERDHDETT PERGYSRGTS DEEEGGGGET SRKKLRLSKN  120
QSAFLEETFK EHNTLNPKQK LALAKKLNMT TRQVEVWFQN RRARTKLKQT EMDCEYLKRC  180
VEKLTEENRR LQKEAMELRT LKLSPQFYGQ MTPPTTLIMC PSCERVAGPS SKHHHNHGSV  240
PINPWAACAG QVAANGLGFE ALRPRS
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1110116SRKKLRL
2160168RRARTKLKQ
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}.
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
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018464421.11e-178PREDICTED: homeobox-leucine zipper protein HAT2-like
SwissprotP466011e-160HAT2_ARATH; Homeobox-leucine zipper protein HAT2
TrEMBLV4N3L51e-163V4N3L5_EUTSA; Uncharacterized protein
STRINGXP_006398428.11e-164(Eutrema salsugineum)
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-140Homeobox-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]