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 RrC1204_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: 330aa    MW: 37043.7 Da    PI: 4.6042
Description TALE family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC1204_p1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox261.5e-082733072155
                 HSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHH CS
    Homeobox  21 knrypsaeereeLAkklgLterqVkvWFqNrRake 55 
                 k +yp++ ++  LA+ +gL+++q+ +WF N+R ++
  RrC1204_p1 273 KWPYPTEGDKIALADATGLDQKQINNWFINQRKRH 307
                 569*****************************885 PP
2ELK30.11.1e-10227248122
         ELK   1 ELKhqLlrKYsgyLgsLkqEFs 22 
                 +LK++LlrK++++++sLk EFs
  RrC1204_p1 227 DLKDRLLRKFGSRISSLKLEFS 248
                 69*******************8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM012558.4E-2285129IPR005540KNOX1
PfamPF037903.6E-2287128IPR005540KNOX1
SMARTSM012561.3E-26137188IPR005541KNOX2
PfamPF037918.2E-25141187IPR005541KNOX2
SMARTSM011886.3E-5227248IPR005539ELK domain
PROSITE profilePS512139.83227247IPR005539ELK domain
PfamPF037892.7E-7227248IPR005539ELK domain
PROSITE profilePS5007112.374247310IPR001356Homeobox domain
SuperFamilySSF466891.63E-19248323IPR009057Homeodomain-like
SMARTSM003891.0E-12249314IPR001356Homeobox domain
Gene3DG3DSA:1.10.10.609.9E-28252311IPR009057Homeodomain-like
CDDcd000861.19E-11259311No hitNo description
PfamPF059202.9E-17267306IPR008422Homeobox KN domain
PROSITE patternPS000270285308IPR017970Homeobox, conserved site
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0010073Biological Processmeristem maintenance
GO:0005634Cellular Componentnucleus
GO:0043565Molecular Functionsequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 330 aa     Download sequence    Send to blast
MDGMYGFHPT DGDYSSDKAV LMMSPDNLMF PSDYQTLLCS SAAENRVSDV FGSDELLSAA  60
ASALSSEAAS IAPEIPRNDD NVSFGVIKAK IAGHPLYPRL LQAYIDCQKV GAPPEIACLL  120
EEIQRESHLH KQNVVPSSSC FGADPELDEF METYCDILVK YKSDLARPFD EATTFLNKIE  180
MQLRNLCTGV EESTRGLSED GAVSSDEELN GGDEILQDGK QICEDRDLKD RLLRKFGSRI  240
SSLKLEFSKK KKKGKLPKEA RQALLDWWNV HYKWPYPTEG DKIALADATG LDQKQINNWF  300
INQRKRHWKP SENMPFAMMD DSSGSFFTEE
Functional Description ? help Back to Top
Source Description
UniProtPlays a role in meristem function. Contributes to the shoot apical meristem (SAM) maintenance and organ separation by controlling boundary establishment in embryo in a CUC1, CUC2 and STM-dependent manner. Involved in maintaining cells in an undifferentiated, meristematic state. Probably binds to the DNA sequence 5'-TGAC-3'. {ECO:0000269|PubMed:16798887}.
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Seems to be repressed by AS2 and AS1 but induced by STM, CUC1 and CUC2. {ECO:0000269|PubMed:11311158, ECO:0000269|PubMed:16798887}.
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_018442762.10.0PREDICTED: homeobox protein knotted-1-like 6 isoform X1
RefseqXP_018442768.10.0PREDICTED: homeobox protein knotted-1-like 6 isoform X2
SwissprotQ84JS60.0KNAT6_ARATH; Homeobox protein knotted-1-like 6
TrEMBLA0A3P5YKR30.0A0A3P5YKR3_BRACM; Uncharacterized protein
TrEMBLM4E7360.0M4E736_BRARP; Uncharacterized protein
STRINGBra024591.1-P0.0(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM8352785
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G23380.10.0KNOTTED1-like homeobox gene 6
Publications ? help Back to Top
  1. Duarte JM, et al.
    Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis.
    Mol. Biol. Evol., 2006. 23(2): p. 469-78
    [PMID:16280546]
  2. Khan M, et al.
    Repression of Lateral Organ Boundary Genes by PENNYWISE and POUND-FOOLISH Is Essential for Meristem Maintenance and Flowering in Arabidopsis.
    Plant Physiol., 2015. 169(3): p. 2166-86
    [PMID:26417006]