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 RrC48_p11
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: 508aa    MW: 55907.2 Da    PI: 4.5172
Description GRAS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC48_p11genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1GRAS4319.1e-1321414981374
       GRAS   1 lvelLlecAeavssgdlelaqalLarlselaspdgdpmqRlaayfteALaarlarsvselykalppsetseknsseelaalklfsevsPilkfshltaNq 100
                lv++L++cAeav++++  la+al++r+  la++++ +m ++aayf+eALa+r++r       + pps+++ ++ s e   +  f+e +P+lkf+h+taNq
  RrC48_p11 141 LVQALVACAEAVQQENPILADALVKRVASLAASQAGAMGKVAAYFAEALARRIYR-------IHPPSPAAADDPSFEEILQMHFYESCPYLKFAHFTANQ 233
                689****************************************************.......457777777776666666678***************** PP

       GRAS 101 aIleavegeervHiiDfdisqGlQWpaLlqaLasRpegppslRiTgvgspesgskeeleetgerLakfAeelgvpfefnvlvakrledleleeLrvkp.g 199
                aIlea+++++ vH+iDf+++qG+QWpaL+qaLa Rp+g+ps+R+Tgvg       + ++++g++La++A+++gv+fef+ l++++l+dle+e+++++p  
  RrC48_p11 234 AILEAAATARVVHVIDFGLGQGMQWPALMQALALRPGGSPSFRLTGVGG------DGVQQLGWKLAQLAQAIGVEFEFRGLTVESLTDLEPEMFETRPeS 327
                ************************************************9......99*****************************************9* PP

       GRAS 200 EalaVnlvlqlhrlldesvsleserdevLklvkslsPkvvvvveqeadhnsesFlerflealeyysalfdsleaklpreseerikvErellgreivnvva 299
                E+l+Vn+v++lh ll++++s+e+    +L++vk ++P +v+vveqea+hn++ Flerf eal+yys+lfdsle ++   s++r + E+  lgr+i nvva
  RrC48_p11 328 ETLVVNSVFELHPLLARPGSIEK----LLETVKAVRPSIVTVVEQEANHNGAVFLERFNEALHYYSSLFDSLEDGVMIPSRDRLMSEAY-LGRQILNVVA 422
                ***********************....*************************************************9999999888777.********** PP

       GRAS 300 cegaerrerhetlekWrerleeaGFkpvplsekaakqaklllrkvk.sdgyrveeesgslvlgWkdrpLvsvSaWr 374
                +eg++r+erhet+ +Wr+r+++aGF pv+l+++a kqa+lll+  + +dgyrvee++gsl+l W+++pL+++SaW+
  RrC48_p11 423 AEGTDRIERHETMDQWRKRMGSAGFDPVSLGSDAFKQASLLLALSGgGDGYRVEENEGSLMLAWQTKPLIAASAWK 498
                ***************************************************************************8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM011291.9E-321183No hitNo description
PfamPF120411.2E-311175IPR021914Transcriptional factor DELLA, N-terminal
PROSITE profilePS5098562.509115477IPR005202Transcription factor GRAS
PfamPF035143.2E-129141498IPR005202Transcription factor GRAS
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009739Biological Processresponse to gibberellin
Sequence ? help Back to Top
Protein Sequence    Length: 508 aa     Download sequence    Send to blast
MGKKLEDDNM DEFLSALGYK VRSSDMADVA QKLEQLEVVL SSDDVLVSNA LNDTVHYNPS  60
DLSSWAETML SELNYYLPSP DLNPTLMYNP RSEDDECCST TTTTTNNKRI RRPWCDSLSS  120
ESTRPAVMLG VDYSQETGVR LVQALVACAE AVQQENPILA DALVKRVASL AASQAGAMGK  180
VAAYFAEALA RRIYRIHPPS PAAADDPSFE EILQMHFYES CPYLKFAHFT ANQAILEAAA  240
TARVVHVIDF GLGQGMQWPA LMQALALRPG GSPSFRLTGV GGDGVQQLGW KLAQLAQAIG  300
VEFEFRGLTV ESLTDLEPEM FETRPESETL VVNSVFELHP LLARPGSIEK LLETVKAVRP  360
SIVTVVEQEA NHNGAVFLER FNEALHYYSS LFDSLEDGVM IPSRDRLMSE AYLGRQILNV  420
VAAEGTDRIE RHETMDQWRK RMGSAGFDPV SLGSDAFKQA SLLLALSGGG DGYRVEENEG  480
SLMLAWQTKP LIAASAWKVS DVAAEWRR
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3g_A1e-5813649714378Protein SCARECROW
5b3h_A2e-5813649713377Protein SCARECROW
5b3h_D2e-5813649713377Protein 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}.
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_018442110.10.0PREDICTED: DELLA protein RGL3-like
SwissprotQ9LF530.0RGL3_ARATH; DELLA protein RGL3
TrEMBLA0A078FR040.0A0A078FR04_BRANA; BnaC09g40420D protein
TrEMBLA0A0D3EER50.0A0A0D3EER5_BRAOL; Uncharacterized protein
STRINGBo9g160170.10.0(Brassica oleracea)
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]