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_02123.1_g00006.1
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: 498aa    MW: 55880.3 Da    PI: 6.3008
Description GRAS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Rsa1.0_02123.1_g00006.1genomeRGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1GRAS454.66e-1391284982374
                     GRAS   2 velLlecAeavssgdlelaqalLarlselaspdgdpmqRlaayfteALaarlarsvselykalppsetseknsseelaalklfsev 87 
                              +  L++cA+a+s++dl +a++++++l+ ++s +g+p++Rl ay++e+L a+la+s+s++yk+l+  +++   s+e l+++++++ev
  Rsa1.0_02123.1_g00006.1 128 RADLVSCAKAMSENDLMMARSMMEKLRLMVSVSGEPIERLGAYLLEGLVAQLASSGSSIYKSLNQCPEP--ASTELLSYMHILYEV 211
                              678************************************************************766666..499************ PP

                     GRAS  88 sPilkfshltaNqaIleavegeervHiiDfdisqGlQWpaLlqaLasRpegppslRiTgvgspesg..skeeleetgerLakfAee 171
                              +P++kf+++ aN aI ea+++e+rvHiiDf+i+qG QW++L+qa+a+Rp+gpp++RiTg+++ +s   +   l+ +g+rLak+A++
  Rsa1.0_02123.1_g00006.1 212 CPYFKFGYMSANGAIAEAMKEENRVHIIDFQIGQGSQWVTLIQAFAARPGGPPRIRITGIDDTTSAyaRGGGLSIVGNRLAKLAKQ 297
                              **************************************************************998899999*************** PP

                     GRAS 172 lgvpfefnvlvakrledleleeLrvkpgEalaVnlvlqlhrlldesvsleserdevLklvkslsPkvvvvveqeadhnsesFlerf 257
                              ++vpfefn  v+ +++++++++L v+pgEalaVn+++ lh+++desvs+e++rd++L++vkslsPkvv++veqe+++n++ F+ rf
  Rsa1.0_02123.1_g00006.1 298 FKVPFEFNS-VSVSVSEVTPKNLGVRPGEALAVNFAFVLHHMPDESVSTENHRDRLLRMVKSLSPKVVTLVEQESNTNTAAFFPRF 382
                              *********.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_02123.1_g00006.1 383 KETMDYYDAMFESIDVTLPRNHKQRINVEQHCLARDVVNIIACEGADRVERHELLGKWRSRFGMAGFTPYPLSPLVNSTIRSLLRN 468
                              ************************************************************************************** PP

                     GRAS 344 vksdgyrveeesgslvlgWkdrpLvsvSaWr 374
                              ++++ yr+ee++g+l+lgW++r Lv+ +aW+
  Rsa1.0_02123.1_g00006.1 469 YSDK-YRLEERDGALYLGWMQRDLVASCAWK 498
                              **55.*************************8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5098569.572101479IPR005202Transcription factor GRAS
PfamPF035142.1E-136128498IPR005202Transcription 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: 498 aa     Download sequence    Send to blast
MYTHPRQEIE DYSLPANSAG KRSRYVPVHN SRKRYCTPES SSPDSPCYDV LSNATVLVSH  60
NNSAYEDTSG SCVTDDFNDK IKELETVMMG PDSLDLVLDY NDSFDSTLSQ ETNSWRSTLE  120
AVSRRDLRAD LVSCAKAMSE NDLMMARSMM EKLRLMVSVS GEPIERLGAY LLEGLVAQLA  180
SSGSSIYKSL NQCPEPASTE LLSYMHILYE VCPYFKFGYM SANGAIAEAM KEENRVHIID  240
FQIGQGSQWV TLIQAFAARP GGPPRIRITG IDDTTSAYAR GGGLSIVGNR LAKLAKQFKV  300
PFEFNSVSVS VSEVTPKNLG VRPGEALAVN FAFVLHHMPD ESVSTENHRD RLLRMVKSLS  360
PKVVTLVEQE SNTNTAAFFP RFKETMDYYD AMFESIDVTL PRNHKQRINV EQHCLARDVV  420
NIIACEGADR VERHELLGKW RSRFGMAGFT PYPLSPLVNS TIRSLLRNYS DKYRLEERDG  480
ALYLGWMQRD LVASCAWK
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5hyz_A3e-661314988375GRAS 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_02123.1_g00006.1
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_018440830.10.0PREDICTED: scarecrow-like transcription factor PAT1
RefseqXP_018440831.10.0PREDICTED: scarecrow-like transcription factor PAT1
RefseqXP_018440832.10.0PREDICTED: scarecrow-like transcription factor PAT1
SwissprotQ9LDL70.0PAT1_ARATH; Scarecrow-like transcription factor PAT1
TrEMBLA0A0D3AWS70.0A0A0D3AWS7_BRAOL; Uncharacterized protein
TrEMBLA0A3P6D6580.0A0A3P6D658_BRAOL; Uncharacterized protein
STRINGBo2g149670.10.0(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]