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 RrC177_p9
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 GRAS
Protein Properties Length: 495aa    MW: 55561 Da    PI: 6.604
Description GRAS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC177_p9genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1GRAS457.49e-1401254952374
       GRAS   2 velLlecAeavssgdlelaqalLarlselaspdgdpmqRlaayfteALaarlarsvselykalppsetseknsseelaalklfsevsPilkfshltaNqa 101
                +  L++cA+a+s++dl +a++++++l+ ++s +g+p+qRl ay++e+L a+la+s+s++yk+l+  +++   s e l+++++++ev+P++kf+++ aN a
  RrC177_p9 125 RADLVSCAKAMSENDLMMANSMMEKLRLMVSVSGEPIQRLGAYLLEGLVAQLASSGSSIYKSLNRCPEP--ASNELLSYMHVLYEVCPYFKFGYMSANGA 222
                678************************************************************666665..499999*********************** PP

       GRAS 102 IleavegeervHiiDfdisqGlQWpaLlqaLasRpegppslRiTgvgspesg..skeeleetgerLakfAeelgvpfefnvlvakrledleleeLrvkpg 199
                I eav++e+rvHiiDf+i+qG QW++L+qa+a+Rp+gpp +RiTg+++++s   +   l+ +g+rLa++A++++vpfefn+ v+ +++++++++L v+pg
  RrC177_p9 223 IAEAVKNENRVHIIDFQIGQGSQWVTLIQAFAERPGGPPWIRITGIDDMTSAyaRGGGLSIVGNRLARLAKKFNVPFEFNP-VSVSVSEVKPNNLGVRPG 321
                ************************************************999999999************************.7999************** PP

       GRAS 200 EalaVnlvlqlhrlldesvsleserdevLklvkslsPkvvvvveqeadhnsesFlerflealeyysalfdsleaklpreseerikvErellgreivnvva 299
                EalaVn+++ lh+++desvs+e++rd++L++vkslsPkvv++veqea++n++ F+ rf+e+++yy a+f+s++++lpr++++ri+vE+++l+r++vn++a
  RrC177_p9 322 EALAVNFAFVLHHMPDESVSTENHRDRLLRMVKSLSPKVVTLVEQEANTNTAAFFPRFMETMDYYDAMFESIDVTLPRNHKQRISVEQHCLARDVVNIIA 421
                **************************************************************************************************** PP

       GRAS 300 cegaerrerhetlekWrerleeaGFkpvplsekaakqaklllrkvksdgyrveeesgslvlgWkdrpLvsvSaWr 374
                cega+r+erhe l+kWr+r+++aGF+p+pls  +++++++llr+++++ yr+ee++g+l+lgW++r Lv+ +aW+
  RrC177_p9 422 CEGADRVERHELLGKWRSRFGMAGFTPYPLSPLVNSTIRTLLRNYSDK-YRLEERDGALYLGWMKRDLVASCAWK 495
                **********************************************55.*************************8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5098570.42898476IPR005202Transcription factor GRAS
PfamPF035143.1E-137125495IPR005202Transcription factor GRAS
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009640Biological Processphotomorphogenesis
GO:0005737Cellular Componentcytoplasm
GO:0004871Molecular Functionsignal transducer activity
Sequence ? help Back to Top
Protein Sequence    Length: 495 aa     Download sequence    Send to blast
MYKHPRQEIE AYSLPPSEAN SVGKLRYVTV NNSRKRYCML EPSSSPDSTV LISNNNNNNS  60
GYEDTSASCV TDDFNDKIKE LETAMMGPDT SDLSLYYNDS FASTSSQETN SWRSTLEAVS  120
RRDLRADLVS CAKAMSENDL MMANSMMEKL RLMVSVSGEP IQRLGAYLLE GLVAQLASSG  180
SSIYKSLNRC PEPASNELLS YMHVLYEVCP YFKFGYMSAN GAIAEAVKNE NRVHIIDFQI  240
GQGSQWVTLI QAFAERPGGP PWIRITGIDD MTSAYARGGG LSIVGNRLAR LAKKFNVPFE  300
FNPVSVSVSE VKPNNLGVRP GEALAVNFAF VLHHMPDESV STENHRDRLL RMVKSLSPKV  360
VTLVEQEANT NTAAFFPRFM ETMDYYDAMF ESIDVTLPRN HKQRISVEQH CLARDVVNII  420
ACEGADRVER HELLGKWRSR FGMAGFTPYP LSPLVNSTIR TLLRNYSDKY RLEERDGALY  480
LGWMKRDLVA SCAWK
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5hyz_A6e-671284958375GRAS family transcription factor containing protein, expressed
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor involved in phytochrome A (phyA) signal transduction. {ECO:0000269|PubMed:10817761}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC1893050.0AC189305.1 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrB031O20, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018457910.10.0PREDICTED: scarecrow-like transcription factor PAT1
RefseqXP_018457911.10.0PREDICTED: scarecrow-like transcription factor PAT1
SwissprotQ9LDL70.0PAT1_ARATH; Scarecrow-like transcription factor PAT1
TrEMBLA0A0D3E0S10.0A0A0D3E0S1_BRAOL; Uncharacterized protein
STRINGBo9g009260.10.0(Brassica oleracea)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM62128141
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G48150.20.0GRAS family protein
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. Ding Y, et al.
    Four distinct types of dehydration stress memory genes in Arabidopsis thaliana.
    BMC Plant Biol., 2013. 13: p. 229
    [PMID:24377444]
  3. Heyman J, et al.
    The heterodimeric transcription factor complex ERF115-PAT1 grants regeneration competence.
    Nat Plants, 2016. 2(11): p. 16165
    [PMID:27797356]