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 Carubv10003592m
Common NameCARUB_v10003592mg
Organism
Capsella rubella
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Capsella
Family GRAS
Protein Properties Length: 534aa    MW: 58254.6 Da    PI: 4.4917
Description GRAS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Carubv10003592mgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1GRAS428.55.2e-1311675261374
             GRAS   1 lvelLlecAeavssgdlelaqalLarlselaspdgdpmqRlaayfteALaarlarsvselykalppsetseknsseelaalklfsevsPilkfs 94 
                      lv++L++cAeav++++l+la+al++r+  la++++ +m ++a+yf+eALa+r++r        ++ps+++ + s eel  +  f++ sP+lkf+
  Carubv10003592m 167 LVQALVACAEAVHQENLSLADALVKRVGSLAASQAGAMGKVATYFAEALARRIYR--------IHPSSAAIDPSFEEL-LQMNFYDSSPYLKFA 251
                      689****************************************************........445555433344443.4446*********** PP

             GRAS  95 hltaNqaIleavegeervHiiDfdisqGlQWpaLlqaLasRpegppslRiTgvgspesgskeeleetgerLakfAeelgvpfefnvlvakrled 188
                      h+taNqaIleav  ++ vH+iD++++qG+QWpaL+qaLa R++gpps+R+Tgvg p+  ++e ++e+g++La++A+++gv+fefn+l+++rl+d
  Carubv10003592m 252 HFTANQAILEAVTVARSVHVIDLGLNQGMQWPALMQALALRAGGPPSFRLTGVGGPS--NREGIQELGWKLAQLAQAIGVEFEFNALTTERLSD 343
                      *******************************************************87..9********************************** PP

             GRAS 189 leleeLrvkp.gEalaVnlvlqlhrlldesvsleserdevLklvkslsPkvvvvveqeadhnsesFlerflealeyysalfdsleaklpresee 281
                      le+++++++p  E+l+Vn++++lh +l++++s+e+    +L +vk ++P +v+vveqea+hn++ Fl+rf eal+yys+lfdsle ++   s++
  Carubv10003592m 344 LEPDMFETRPeSETLVVNSIFELHPVLAQPGSIEK----LLATVKAVQPSIVTVVEQEANHNGAVFLDRFNEALHYYSSLFDSLEDSVVIPSQD 433
                      **********9************************....************************************************9888887 PP

             GRAS 282 rikvErellgreivnvvacegaerrerhetlekWrerleeaGFkpvplsekaakqaklllrkvk.sdgyrveeesgslvlgWkdrpLvsvSaWr 374
                      r+ +++++lgr+i nvva+eg++r+erhetl++Wr+r+++aGF +v+l+++a +qa+lll+  + +dgy+vee++gsl+l W+++pL+++SaW+
  Carubv10003592m 434 RV-MSEVYLGRQILNVVAAEGTDRIERHETLAQWRKRMGSAGFVKVNLGSDAFNQASLLLAISGgGDGYKVEENDGSLMLAWQTKPLIAASAWK 526
                      76.56677*************************************************************************************8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF120411.7E-3139109IPR021914Transcriptional factor DELLA, N-terminal
SMARTSM011297.1E-3439115No hitNo description
PROSITE profilePS5098563.955141505IPR005202Transcription factor GRAS
PfamPF035141.8E-128167526IPR005202Transcription factor GRAS
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0009739Biological Processresponse to gibberellin
Sequence ? help Back to Top
Protein Sequence    Length: 534 aa     Download sequence    Send to blast
MKRTHQETSV KEEALSMSDY GKNLEGTIGC GGGGDDNIDE LLSVLGYKVR SSDMADVAQK  60
LEQLEMVLTN DSDDVVGSSY NFLNDTVHYN PSDLSGWAQT MLSELNYYPD LDPTTRICDL  120
RPITDDDDCC SSYSNSSKRV RLGPWCDSVS SESTRSVVLI EETGVRLVQA LVACAEAVHQ  180
ENLSLADALV KRVGSLAASQ AGAMGKVATY FAEALARRIY RIHPSSAAID PSFEELLQMN  240
FYDSSPYLKF AHFTANQAIL EAVTVARSVH VIDLGLNQGM QWPALMQALA LRAGGPPSFR  300
LTGVGGPSNR EGIQELGWKL AQLAQAIGVE FEFNALTTER LSDLEPDMFE TRPESETLVV  360
NSIFELHPVL AQPGSIEKLL ATVKAVQPSI VTVVEQEANH NGAVFLDRFN EALHYYSSLF  420
DSLEDSVVIP SQDRVMSEVY LGRQILNVVA AEGTDRIERH ETLAQWRKRM GSAGFVKVNL  480
GSDAFNQASL LLAISGGGDG YKVEENDGSL MLAWQTKPLI AASAWKLAAE LRR*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_A6e-6416152512377Protein SCARECROW
5b3h_D6e-6416152512377Protein SCARECROW
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtProbable transcriptional regulator that acts as a repressor of the gibberellin (GA) signaling pathway. No effect of the BOI proteins on its stability. Probably acts by participating in large multiprotein complexes that repress transcription of GA-inducible genes. Its activity may be regulated by phytohormones such as auxin and ethylene (By similarity). {ECO:0000250, ECO:0000269|PubMed:12610625, ECO:0000269|PubMed:14615596}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapCarubv10003592m
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_006289966.10.0DELLA protein RGL3
SwissprotQ9LF530.0RGL3_ARATH; DELLA protein RGL3
TrEMBLR0H0W30.0R0H0W3_9BRAS; Uncharacterized protein
STRINGXP_006289966.10.0(Capsella rubella)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM83728121
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G17490.10.0RGA-like protein 3
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. Wild M,Achard P
    The DELLA protein RGL3 positively contributes to jasmonate/ethylene defense responses.
    Plant Signal Behav, 2013. 8(4): p. e23891
    [PMID:23425858]
  3. Shi H,Wei Y,Wang Q,Reiter RJ,He C
    Melatonin mediates the stabilization of DELLA proteins to repress the floral transition in Arabidopsis.
    J. Pineal Res., 2016. 60(3): p. 373-9
    [PMID:26887824]
  4. Shi H,Liu W,Wei Y,Ye T
    Integration of auxin/indole-3-acetic acid 17 and RGA-LIKE3 confers salt stress resistance through stabilization by nitric oxide in Arabidopsis.
    J. Exp. Bot., 2017. 68(5): p. 1239-1249
    [PMID:28158805]
  5. Huang KC,Lin WC,Cheng WH
    Salt hypersensitive mutant 9, a nucleolar APUM23 protein, is essential for salt sensitivity in association with the ABA signaling pathway in Arabidopsis.
    BMC Plant Biol., 2018. 18(1): p. 40
    [PMID:29490615]