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 RrC1693_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: 297aa    MW: 32468.4 Da    PI: 8.9878
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC1693_p2genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox58.79.6e-19149203256
                 T--SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS
    Homeobox   2 rkRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56 
                 rk+ +++keq  +Lee F+++++++ +++  LAk+l+L +rqV vWFqNrRa+ k
  RrC1693_p2 149 RKKLRLSKEQALVLEETFKEHSTLNPKQKMALAKQLNLRTRQVEVWFQNRRARTK 203
                 788899***********************************************98 PP
2HD-ZIP_I/II119.32e-38149233185
  HD-ZIP_I/II   1 ekkrrlskeqvklLEesFeeeekLeperKvelareLglqprqvavWFqnrRARtktkqlEkdyeaLkraydalkeenerLekeve 85 
                  +kk+rlskeq+ +LEe+F+e+++L+p++K++la++L+l++rqv+vWFqnrRARtk+kq+E+d+e+Lkr++++l+een+rL+ke +
   RrC1693_p2 149 RKKLRLSKEQALVLEETFKEHSTLNPKQKMALAKQLNLRTRQVEVWFQNRRARTKLKQTEVDCEYLKRCCENLTEENRRLQKELS 233
                  69*******************************************************************************9975 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF046183.2E-321106IPR006712HD-ZIP protein, N-terminal
Gene3DG3DSA:1.10.10.601.9E-19129203IPR009057Homeodomain-like
SuperFamilySSF466894.71E-19130206IPR009057Homeodomain-like
PROSITE profilePS5007117.313145205IPR001356Homeobox domain
SMARTSM003892.6E-15147209IPR001356Homeobox domain
PfamPF000463.7E-16149203IPR001356Homeobox domain
CDDcd000865.01E-14149206No hitNo description
PROSITE patternPS000270180203IPR017970Homeobox, conserved site
PfamPF021833.3E-9205232IPR003106Leucine zipper, homeobox-associated
SMARTSM003403.8E-16205248IPR003106Leucine 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: 297 aa     Download sequence    Send to blast
MGERDDGLGL SLSLSLGLNQ KESSPRLNPV PMASYSSSSH MHMQNHYNHP QKIQNKRNSD  60
VGSFLRGLDV NRVPSRLVVD VEDDAGVSSP NSTVSSVMSG KRNERELVAV GGAGGGRTVE  120
DNEAERGSSS LGGGSDDEDG SGNGDDGSRK KLRLSKEQAL VLEETFKEHS TLNPKQKMAL  180
AKQLNLRTRQ VEVWFQNRRA RTKLKQTEVD CEYLKRCCEN LTEENRRLQK ELSPQLYMHM  240
KPPTTLTMCP SCERVAVTSS SSSSVAPAPV MSSSSPMGPM SPWAAIPLRQ RPAAGSR
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1147153SRKKLRL
2197205RRARTKLKQ
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor. {ECO:0000250}.
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_020882296.11e-157homeobox-leucine zipper protein HAT3
SwissprotP466021e-156HAT3_ARATH; Homeobox-leucine zipper protein HAT3
TrEMBLA0A397Y1X01e-156A0A397Y1X0_BRACM; Uncharacterized protein
STRINGBostr.13158s0030.1.p1e-163(Boechera stricta)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM25772772
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G60390.11e-99homeobox-leucine zipper protein 3
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]
  3. Caggiano MP, et al.
    Cell type boundaries organize plant development.
    Elife, 2018.
    [PMID:28895530]