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 Lus10001238
Organism
Linum usitatissimum
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Malpighiales; Linaceae; Linum
Family TALE
Protein Properties Length: 372aa    MW: 42233 Da    PI: 5.77
Description TALE family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Lus10001238genomeBGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox28.33.1e-093043382155
                  HSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHH CS
     Homeobox  21 knrypsaeereeLAkklgLterqVkvWFqNrRake 55 
                  k +yp+++++ eLA+++gL+++q+ +WF N+R ++
  Lus10001238 304 KWPYPTETDKLELAASTGLDQKQINNWFINQRKRH 338
                  569*****************************885 PP
2ELK26.91.1e-09258278121
          ELK   1 ELKhqLlrKYsgyLgsLkqEF 21 
                  ELK+ Ll KY+gyL+ LkqEF
  Lus10001238 258 ELKDKLLEKYGGYLSRLKQEF 278
                  9*******************9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM012551.5E-1691142IPR005540KNOX1
PfamPF037901.8E-1793141IPR005540KNOX1
SMARTSM012562.7E-18145196IPR005541KNOX2
PfamPF037919.3E-19151195IPR005541KNOX2
SMARTSM011881.3E-5258279IPR005539ELK domain
PROSITE profilePS5121310.825258278IPR005539ELK domain
PfamPF037892.3E-7258278IPR005539ELK domain
PROSITE profilePS5007112.584278341IPR001356Homeobox domain
SMARTSM003892.5E-12280345IPR001356Homeobox domain
SuperFamilySSF466892.14E-19280352IPR009057Homeodomain-like
Gene3DG3DSA:1.10.10.601.6E-26283343IPR009057Homeodomain-like
PfamPF059208.1E-17298337IPR008422Homeobox KN domain
CDDcd000865.20E-12304341No hitNo description
PROSITE patternPS000270316339IPR017970Homeobox, conserved site
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0005634Cellular Componentnucleus
GO:0043565Molecular Functionsequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 372 aa     Download sequence    Send to blast
MDTPYYPYST PTIIPGFTSN NLHHDYYVDH DNYCYNYYYA QSFPHSPPPA PTPPPAAAGE  60
VMFCPSSGGS SSVSDAASTA QLPPQEDQTE SEIRAKISAH PLYPRLIQAY VDCQKVLVWL  120
SKVGAPAEMA FLLEEIRQQS HHLSSYHTSS VDPELDDFME RYHEILVKYK WELWKPFEEA  180
TTFLSDIQSQ FHTLCGADAP PSIHVSDHEV AEGGMMYTNG YNSNAGGGGS SDEDIIMAGG  240
SEVVDGHCSQ QLNEEERELK DKLLEKYGGY LSRLKQEFTK KKKKGKLPKE ARLLLLNWWN  300
LHYKWPYPTE TDKLELAAST GLDQKQINNW FINQRKRHWK PTENMHSSVM DTLYGSSVSN  360
QYYPSSHYQQ H*
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}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapLus10001238
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_002511373.16e-93homeobox protein knotted-1-like 6 isoform X2
SwissprotQ84JS61e-79KNAT6_ARATH; Homeobox protein knotted-1-like 6
TrEMBLB9RAZ81e-91B9RAZ8_RICCO; Homeobox protein knotted-1, putative
STRINGLus100012380.0(Linum usitatissimum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF62034125
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G23380.29e-67KNOTTED1-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]