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 RrC18890_p1
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: 280aa    MW: 30557.6 Da    PI: 7.9106
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC18890_p1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox58.21.4e-18123177256
                  T--SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS
     Homeobox   2 rkRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56 
                  rk+ ++tk+q   Lee F+++++++ ++++ LA++l+L  rqV vWFqNrRa+ k
  RrC18890_p1 123 RKKLRLTKQQSALLEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRARTK 177
                  788899***********************************************98 PP
2HD-ZIP_I/II124.93.8e-40123212191
  HD-ZIP_I/II   1 ekkrrlskeqvklLEesFeeeekLeperKvelareLglqprqvavWFqnrRARtktkqlEkdyeaLkraydalkeenerLekeveeLreel 91 
                  +kk+rl+k+q++lLEesF+++++L+p++K++lar+L+l+prqv+vWFqnrRARtk+kq+E+d+e Lk+++d+l++en+rL+ke ++L+ +l
  RrC18890_p1 123 RKKLRLTKQQSALLEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRARTKLKQTEVDCEILKKCCDTLTDENRRLQKELQDLK-AL 212
                  69*************************************************************************************9.55 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5007117.313119179IPR001356Homeobox domain
SuperFamilySSF466892.78E-18121187IPR009057Homeodomain-like
SMARTSM003892.5E-15121183IPR001356Homeobox domain
PfamPF000465.2E-16123177IPR001356Homeobox domain
Gene3DG3DSA:1.10.10.601.9E-17123177IPR009057Homeodomain-like
CDDcd000869.99E-17123180No hitNo description
PROSITE patternPS000270154177IPR017970Homeobox, conserved site
SMARTSM003401.2E-24179222IPR003106Leucine zipper, homeobox-associated
PfamPF021834.6E-11179213IPR003106Leucine zipper, homeobox-associated
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0043565Molecular Functionsequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 280 aa     Download sequence    Send to blast
MGLDDSCNTG LVLGLGLSIT PHIYNPAIKK TSATVDHHLD PSLTLSLSGE SYMTKTVEMT  60
VAGAGSQVCR QTSSHSGISS FSSGRVKRER DICGEEEAGE TTERVVCSRV IDDHEDEEGV  120
SARKKLRLTK QQSALLEESF KQHSTLNPKQ KQALARQLNL RPRQVEVWFQ NRRARTKLKQ  180
TEVDCEILKK CCDTLTDENR RLQKELQDLK ALKMSQPFYM HMPAATLTMC PSCERLGGGG  240
AGAGGGGGTV EVDEGTAKGA FSIVTNTRFY NPFTSPSAAC
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1171179RRARTKLKQ
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 -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAJ4412540.0AJ441254.1 Arabidopsis thaliana mRNA for homeodomain-leucine zipper protein HAT22.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018485123.10.0PREDICTED: homeobox-leucine zipper protein HAT22-like
SwissprotP466041e-147HAT22_ARATH; Homeobox-leucine zipper protein HAT22
TrEMBLA0A397L1K11e-165A0A397L1K1_BRACM; Uncharacterized protein
STRINGBra017853.1-P1e-166(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM16712886
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G37790.11e-149HD-ZIP family 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. Liu T,Longhurst AD,Talavera-Rauh F,Hokin SA,Barton MK
    The Arabidopsis transcription factor ABIG1 relays ABA signaled growth inhibition and drought induced senescence.
    Elife, 2017.
    [PMID:27697148]
  3. Song L, et al.
    A transcription factor hierarchy defines an environmental stress response network.
    Science, 2017.
    [PMID:27811239]