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 RrC13304_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 TALE
Protein Properties Length: 286aa    MW: 32267.3 Da    PI: 6.1115
Description TALE family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC13304_p1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox24.54.6e-082232562154
                  HSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHH CS
     Homeobox  21 knrypsaeereeLAkklgLterqVkvWFqNrRak 54 
                  k +yp++e++++L +++gL+ +q+ +WF N+R +
  RrC13304_p1 223 KWPYPTEEDKARLVQETGLQLKQINNWFINQRKR 256
                  469*****************************87 PP
2ELK29.51.7e-10177198122
          ELK   1 ELKhqLlrKYsgyLgsLkqEFs 22 
                  ELKh+L+++Y+++++++++E++
  RrC13304_p1 177 ELKHELKQGYKEKIVDIREEIL 198
                  9*******************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM012558.7E-20953IPR005540KNOX1
PfamPF037905.4E-181252IPR005540KNOX1
SMARTSM012566.4E-2865120IPR005541KNOX2
PfamPF037919.8E-2171119IPR005541KNOX2
SMARTSM011886.1E-4177198IPR005539ELK domain
PROSITE profilePS512139.969177197IPR005539ELK domain
PfamPF037896.0E-7177198IPR005539ELK domain
PROSITE profilePS5007111.726197260IPR001356Homeobox domain
SuperFamilySSF466892.31E-16199263IPR009057Homeodomain-like
SMARTSM003892.4E-11199264IPR001356Homeobox domain
CDDcd000863.03E-11200261No hitNo description
Gene3DG3DSA:1.10.10.601.6E-25204261IPR009057Homeodomain-like
PfamPF059206.9E-18217256IPR008422Homeobox KN domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 286 aa     Download sequence    Send to blast
EGVVSWQNAR QKAEILSHPL YEQLLSAHVA CLRIATPVDQ LPRIDAQLAQ SQNVVAKYSA  60
LGAGQGLVGD DDKELDQFMT HYVLLLCSFK EQLQQHVRVH AMEAVMACWE IEQSLQSLTG  120
VSPGEGMGAT MSDDEDEQQV ESDANMFDGG GGLDVLGFGP LVPTESERSL MERVRQELKH  180
ELKQGYKEKI VDIREEILRK RRAGKLPGDT TSVLKAWWQS HSKWPYPTEE DKARLVQETG  240
LQLKQINNWF INQRKRNWHS NPSSSSVLKN KRKSNAGDDS GRERFT
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1x2n_A6e-13200264872Homeobox protein PKNOX1
Search in ModeBase
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK3529660.0AK352966.1 Thellungiella halophila mRNA, complete cds, clone: RTFL01-12-H10.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_013700178.10.0homeobox protein knotted-1-like 3 isoform X1
SwissprotP480000.0KNAT3_ARATH; Homeobox protein knotted-1-like 3
TrEMBLA0A398AJ250.0A0A398AJ25_BRACM; Uncharacterized protein
TrEMBLA0A3P6AXQ20.0A0A3P6AXQ2_BRACM; Uncharacterized protein
STRINGXP_006394770.10.0(Eutrema salsugineum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM44428158
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G25220.11e-176KNOTTED1-like homeobox gene 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]