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_01249.1_g00006.1
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: 314aa    MW: 34377.5 Da    PI: 8.7328
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Rsa1.0_01249.1_g00006.1genomeRGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox58.61e-18158212256
                              T--SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS
                 Homeobox   2 rkRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56 
                              rk+ +++keq  +Lee F+++++++ +++  LAk+l+L +rqV vWFqNrRa+ k
  Rsa1.0_01249.1_g00006.1 158 RKKLRLSKEQALVLEETFKEHSTLNPKQKMALAKQLNLRTRQVEVWFQNRRARTK 212
                              788899***********************************************98 PP
2HD-ZIP_I/II122.91.6e-39158247191
              HD-ZIP_I/II   1 ekkrrlskeqvklLEesFeeeekLeperKvelareLglqprqvavWFqnrRARtktkqlEkdyeaLkraydalkeenerLekevee 86 
                              +kk+rlskeq+ +LEe+F+e+++L+p++K++la++L+l++rqv+vWFqnrRARtk+kq+E+d+e+Lkr++++l+een+rL+kev+e
  Rsa1.0_01249.1_g00006.1 158 RKKLRLSKEQALVLEETFKEHSTLNPKQKMALAKQLNLRTRQVEVWFQNRRARTKLKQTEVDCEYLKRCCENLTEENRRLQKEVSE 243
                              69************************************************************************************ PP

              HD-ZIP_I/II  87 Lreel 91 
                              Lr +l
  Rsa1.0_01249.1_g00006.1 244 LR-AL 247
                              *9.55 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF046183.8E-341115IPR006712HD-ZIP protein, N-terminal
Gene3DG3DSA:1.10.10.603.2E-19138212IPR009057Homeodomain-like
SuperFamilySSF466895.56E-19139215IPR009057Homeodomain-like
PROSITE profilePS5007117.313154214IPR001356Homeobox domain
SMARTSM003892.6E-15156218IPR001356Homeobox domain
PfamPF000464.0E-16158212IPR001356Homeobox domain
CDDcd000863.15E-13158215No hitNo description
PROSITE patternPS000270189212IPR017970Homeobox, conserved site
PfamPF021835.7E-11214248IPR003106Leucine zipper, homeobox-associated
SMARTSM003401.6E-26214257IPR003106Leucine 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: 314 aa     Download sequence    Send to blast
MGERDDGLGL SLSLSLGLNQ KESSPRTNPV PMASYSSSSH MHMQNHYNHP QKIQNSWIQM  60
FQSSERNSDV GSFLRGLDVN RVPSRVVVDV EDDAGVSSPN STVSSVMSGK RNERELVAAG  120
GAGGGRTVED NEAERGSSSL GGGSDDEDGG GNGDDGSRKK LRLSKEQALV LEETFKEHST  180
LNPKQKMALA KQLNLRTRQV EVWFQNRRAR TKLKQTEVDC EYLKRCCENL TEENRRLQKE  240
VSELRALKLS PQLYMHMKPP TTLTMCPSCE RVAVTSSSSS SVAPAPVMSS SSPMGPMSPW  300
AAIPLRQRPA AGSR
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1156162SRKKLRL
2206214RRARTKLKQ
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor. {ECO:0000250}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapRsa1.0_01249.1_g00006.1
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_018488640.10.0PREDICTED: homeobox-leucine zipper protein HAT3-like
RefseqXP_018489946.10.0PREDICTED: homeobox-leucine zipper protein HAT3-like
SwissprotP466021e-174HAT3_ARATH; Homeobox-leucine zipper protein HAT3
TrEMBLA0A397Y1X01e-176A0A397Y1X0_BRACM; Uncharacterized protein
STRINGBostr.13158s0030.1.p0.0(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-105homeobox-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]