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 RrC3621_p3
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: 423aa    MW: 46179.4 Da    PI: 8.6771
Description TALE family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC3621_p3genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox28.62.4e-092122442254
                 SSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHH CS
    Homeobox  22 nrypsaeereeLAkklgLterqVkvWFqNrRak 54 
                 ++yp+ +++  LAk++gL+ +qV++WF N R +
  RrC3621_p3 212 HPYPTDTDKLMLAKQTGLSRNQVSNWFINARVR 244
                 89*****************************87 PP
2BELL108.15.5e-3567134572
        BELL   5 lqkkkakLlslleeVdkrYkqyveqlqtvissFeavaglgsakpYtslAlkaiSrhFrcLkdaiaeqi 72 
                   k k+kL+s+l+eV+krYkqy+eqlq+v++sFe+vaglg+a+pY+sl lka+SrhF+cLk+ai+eq+
  RrC3621_p3  67 YMKNKSKLISMLDEVYKRYKQYYEQLQAVMGSFECVAGLGHAAPYASLTLKALSRHFKCLKNAITEQL 134
                 56789*************************************************************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM005746.0E-609132IPR006563POX domain
PfamPF075261.8E-3414131IPR006563POX domain
CDDcd000861.09E-11188249No hitNo description
SMARTSM003894.0E-9188252IPR001356Homeobox domain
SuperFamilySSF466894.71E-17190256IPR009057Homeodomain-like
Gene3DG3DSA:1.10.10.604.6E-27192252IPR009057Homeodomain-like
PfamPF059201.2E-18205244IPR008422Homeobox KN domain
PROSITE profilePS5007111.645207248IPR001356Homeobox domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 423 aa     Download sequence    Send to blast
SSGPLGPFTG YASILKGSRF LKPAQILLDE FCNVGHGIYT DKNIHGDDSS MLFDPTVESL  60
CGGGGEYMKN KSKLISMLDE VYKRYKQYYE QLQAVMGSFE CVAGLGHAAP YASLTLKALS  120
RHFKCLKNAI TEQLQFSTNN KIQQQQSGHL MITENRTESM RFGGSDSSRG LCSAGQRHGF  180
SDNHAPVWRP HRGLPERAVT VLRAWLFDHF LHPYPTDTDK LMLAKQTGLS RNQVSNWFIN  240
ARVRVWKPMV EEIHMLETRQ SQRPSSSSWR DERNTTAVLP DNNNPSSSPA QQRANNNSSP  300
ARRVQNDDVH GTTTNNNNNF MNAGNSGSVG AVGFSYGIAS SNVAGMSSST NGGVSLTLGL  360
HHQIGLPEPF PMTTAQRFGL DGGSSGGGGE SYGGGGGYEV QNRQFGRDFI GGSNPQFLHD  420
FVG
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5bng_A1e-16194252159Homeobox protein Meis2
5bng_B1e-16194252159Homeobox protein Meis2
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor that is involved in the preservation of the spiral phyllotactic arrangement leading to a regular pattern of organ initiation. Required for maintenance of stem cell fate in the shoot apical meristem, and is essential for specifying floral primordia and establishing early internode patterning events during inflorescence development. Acts as transcription repressor of AG expression in floral and inflorescence meristems. Is also responsive of the nuclear import of SHOOT MERISTEMLESS (STM). In the fruit, plays a central role in patterning by negatively regulating SHP expression in order to prevent replum cells from adopting a valve margin cell fate. {ECO:0000269|PubMed:12874117, ECO:0000269|PubMed:12897247, ECO:0000269|PubMed:13678595, ECO:0000269|PubMed:15019989, ECO:0000269|PubMed:15120075, ECO:0000269|PubMed:15155890, ECO:0000269|PubMed:16741748}.
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_009122816.10.0PREDICTED: BEL1-like homeodomain protein 9
RefseqXP_013668263.10.0BEL1-like homeodomain protein 9
SwissprotQ9LZM80.0BLH9_ARATH; BEL1-like homeodomain protein 9
TrEMBLA0A078FED50.0A0A078FED5_BRANA; BnaCnng03740D protein
STRINGBra009618.1-P0.0(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM56882746
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G02030.10.0TALE 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. Pabón-Mora N,Wong GK,Ambrose BA
    Evolution of fruit development genes in flowering plants.
    Front Plant Sci, 2014. 5: p. 300
    [PMID:25018763]
  3. 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]
  4. Andrés F, et al.
    Floral Induction in Arabidopsis by FLOWERING LOCUS T Requires Direct Repression of BLADE-ON-PETIOLE Genes by the Homeodomain Protein PENNYWISE.
    Plant Physiol., 2015. 169(3): p. 2187-99
    [PMID:26417007]
  5. Bencivenga S,Serrano-Mislata A,Bush M,Fox S,Sablowski R
    Control of Oriented Tissue Growth through Repression of Organ Boundary Genes Promotes Stem Morphogenesis.
    Dev. Cell, 2016. 39(2): p. 198-208
    [PMID:27666746]
  6. Sehra B,Franks RG
    Redundant CArG Box Cis-motif Activity Mediates SHATTERPROOF2 Transcriptional Regulation during Arabidopsis thaliana Gynoecium Development.
    Front Plant Sci, 2017. 8: p. 1712
    [PMID:29085379]
  7. Simonini S,Stephenson P,Østergaard L
    A molecular framework controlling style morphology in Brassicaceae.
    Development, 2018.
    [PMID:29440299]