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 Rsa1.0_00323.1_g00019.1
Organism
Raphanus sativus
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: 55541 Da    PI: 6.604
Description GRAS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Rsa1.0_00323.1_g00019.1genomeRGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1GRAS456.12.2e-1391254952374
                     GRAS   2 velLlecAeavssgdlelaqalLarlselaspdgdpmqRlaayfteALaarlarsvselykalppsetseknsseelaalklfsev 87 
                              +  L++cA+a+s++dl +a++++++l+ ++s +g+p+qRl ay++e+L a+la+s+s++yk+l+  +++   s e l+++++++ev
  Rsa1.0_00323.1_g00019.1 125 RADLVSCAKAMSENDLMMANSMMEKLRLMVSVSGEPIQRLGAYLLEGLVAQLASSGSSIYKSLNRCPEP--ASNELLSYMHVLYEV 208
                              678************************************************************666665..499999********* PP

                     GRAS  88 sPilkfshltaNqaIleavegeervHiiDfdisqGlQWpaLlqaLasRpegppslRiTgvgspesg..skeeleetgerLakfAee 171
                              +P++kf+++ aN aI eav++e+rvHiiDf+i+qG QW++L+qa+a+Rp+gpp +RiTg+++++s   +   l+ +g+rLa++A++
  Rsa1.0_00323.1_g00019.1 209 CPYFKFGYMSANGAIAEAVKNENRVHIIDFQIGQGSQWVTLIQAFAERPGGPPWIRITGIDDMTSAyaRGGGLSIVGNRLARLAKK 294
                              **************************************************************999999999*************** PP

                     GRAS 172 lgvpfefnvlvakrledleleeLrvkpgEalaVnlvlqlhrlldesvsleserdevLklvkslsPkvvvvveqeadhnsesFlerf 257
                              ++vpfefn  v+ +++++++++L v+pgEalaVn+++ lh+++desvs+e++rd++L++vkslsPkvv++veqea++n++ F+ rf
  Rsa1.0_00323.1_g00019.1 295 FNVPFEFNS-VSVSVSEVKPNNLGVRPGEALAVNFAFVLHHMPDESVSTENHRDRLLRMVKSLSPKVVTLVEQEANTNTAAFFPRF 379
                              *********.7999************************************************************************ PP

                     GRAS 258 lealeyysalfdsleaklpreseerikvErellgreivnvvacegaerrerhetlekWrerleeaGFkpvplsekaakqaklllrk 343
                              +e+++yy a+f+s++++lpr++++ri+vE+++l+r++vn++acega+r+erhe l+kWr+r+++aGF+p+pls  +++++++llr+
  Rsa1.0_00323.1_g00019.1 380 METMDYYDAMFESIDVTLPRNHKQRISVEQHCLARDVVNIIACEGADRVERHELLGKWRSRFGMAGFTPYPLSPLVNSTIRTLLRN 465
                              ************************************************************************************** PP

                     GRAS 344 vksdgyrveeesgslvlgWkdrpLvsvSaWr 374
                              ++++ yr+ee++g+l+lgW++r Lv+ +aW+
  Rsa1.0_00323.1_g00019.1 466 YSDK-YRLEERDGALYLGWMKRDLVASCAWK 495
                              **55.*************************8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5098570.38398476IPR005202Transcription factor GRAS
PfamPF035147.5E-137125495IPR005202Transcription factor GRAS
Sequence ? help Back to Top
Protein Sequence    Length: 495 aa     Download sequence    Send to blast
MYKHPRQEVE AYPLPPSESN SVGKLRYVPV NNSRKRYCML EPSSSPDSTV LVSNNNNNNS  60
GYEDTSASCV TDDFNDKIKE LETAMMGPDS SDLPLYYNDS FASTSSQETN SWRSTLEAVS  120
RRDLRADLVS CAKAMSENDL MMANSMMEKL RLMVSVSGEP IQRLGAYLLE GLVAQLASSG  180
SSIYKSLNRC PEPASNELLS YMHVLYEVCP YFKFGYMSAN GAIAEAVKNE NRVHIIDFQI  240
GQGSQWVTLI QAFAERPGGP PWIRITGIDD MTSAYARGGG LSIVGNRLAR LAKKFNVPFE  300
FNSVSVSVSE 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_A2e-651284958375GRAS 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}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapRsa1.0_00323.1_g00019.1
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]