PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID RrC4935_p2
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: 444aa    MW: 50017.2 Da    PI: 6.5734
Description GRAS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC4935_p2genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1GRAS511.43.3e-156524411374
        GRAS   1 lvelLlecAeavssgdlelaqalLarlselaspdgdpmqRlaayfteALaarlarsvselykalppsetseknsseelaalklfsevsPilkfshltaN 99 
                 l++lLl+cA++v+sg+l++a+a+L++ls l+sp+gd+mqR+aayfteALa+r+++s+++l kal++++ +++n+see+++++lf++++Pilk+s+l++N
  RrC4935_p2  52 LIHLLLTCANHVASGSLQNANAALEQLSLLSSPEGDTMQRVAAYFTEALANRILKSWPGLHKALNATQRKTSNVSEEVHVRRLFFDMFPILKVSYLLTN 150
                 689************************************************************************************************ PP

        GRAS 100 qaIleavegeervHiiDfdisqGlQWpaLlqaLasRpegppslRiTgvgspesgskeeleetgerLakfAeelgvpfefnvlvakrledleleeLrvkp 198
                 +aIlea+ege++vH+iD+d+s+++QW+aL+qa++sRpegpp+lRiT v++    +ke l ++++rL++ Ae+l++pf+fn+ v+++le+l++++Lrvk+
  RrC4935_p2 151 RAILEAMEGEKMVHVIDLDASEPAQWLALIQAFNSRPEGPPHLRITCVHH----HKEVLDQMAHRLTEEAEKLDIPFQFNP-VVSSLESLNVDQLRVKT 244
                 **************************************************....9**************************.799************** PP

        GRAS 199 gEalaVnlvlqlhrll...................desvsles..erdevLklvkslsPkvvvvveqeadhnsesFlerflealeyysalfdsleaklp 276
                 gEalaV++vlqlh++l                   ++s +l++  ++d++L++++slsPk++vv+eq++dhn+++++er+le+l++y+alfd+leak+p
  RrC4935_p2 245 GEALAVSSVLQLHNFLassdddflrkngyslsgdsASSFPLPNsgRIDRFLNAMWSLSPKIMVVTEQDSDHNGSTLMERLLESLYTYAALFDCLEAKVP 343
                 *********************************99666666666699**************************************************** PP

        GRAS 277 reseerikvErellgreivnvvacegaerrerhetlekWrerleeaGFkpvplsekaakqaklllrkvksdgyrveeesgslvlgWkdrpLvsvSaWr 374
                 r+ ++rikvE++++g+ei+n++aceg+errerhe+lekW++r++ aGF++vpls++a+ qa++ll+ +++dgy+++eesg++v++W+drpL+svSaWr
  RrC4935_p2 344 RTCQDRIKVEKMFFGEEIKNIIACEGSERRERHEKLEKWSQRIDLAGFGNVPLSYFAMLQARRLLQGYGFDGYMIKEESGCAVICWQDRPLYSVSAWR 441
                 *************************************************************************************************8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5098561.07426421IPR005202Transcription factor GRAS
PfamPF035141.2E-15352441IPR005202Transcription factor GRAS
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009739Biological Processresponse to gibberellin
GO:0005634Cellular Componentnucleus
Sequence ? help Back to Top
Protein Sequence    Length: 444 aa     Download sequence    Send to blast
MVAKFQEDNG TSSVASSPLQ VFSTMSLTRP TLLSSPSSPF KDLKPEERGL YLIHLLLTCA  60
NHVASGSLQN ANAALEQLSL LSSPEGDTMQ RVAAYFTEAL ANRILKSWPG LHKALNATQR  120
KTSNVSEEVH VRRLFFDMFP ILKVSYLLTN RAILEAMEGE KMVHVIDLDA SEPAQWLALI  180
QAFNSRPEGP PHLRITCVHH HKEVLDQMAH RLTEEAEKLD IPFQFNPVVS SLESLNVDQL  240
RVKTGEALAV SSVLQLHNFL ASSDDDFLRK NGYSLSGDSA SSFPLPNSGR IDRFLNAMWS  300
LSPKIMVVTE QDSDHNGSTL MERLLESLYT YAALFDCLEA KVPRTCQDRI KVEKMFFGEE  360
IKNIIACEGS ERRERHEKLE KWSQRIDLAG FGNVPLSYFA MLQARRLLQG YGFDGYMIKE  420
ESGCAVICWQ DRPLYSVSAW RCRK
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_A5e-69354431380Protein SCARECROW
5b3h_D5e-69354431380Protein SCARECROW
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor involved in plant development. {ECO:0000250}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC1893010.0AC189301.2 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrB030D08, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018486060.10.0PREDICTED: scarecrow-like protein 3
SwissprotQ9LPR80.0SCL3_ARATH; Scarecrow-like protein 3
TrEMBLA0A078HGZ10.0A0A078HGZ1_BRANA; BnaC06g03620D protein
TrEMBLA0A0D3CPR60.0A0A0D3CPR6_BRAOL; Uncharacterized protein
TrEMBLA0A3P6FPV30.0A0A3P6FPV3_BRAOL; Uncharacterized protein (Fragment)
STRINGBo6g022200.10.0(Brassica oleracea)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM40982759
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G50420.10.0scarecrow-like 3
Publications ? help Back to Top
  1. Gong X, et al.
    SEUSS Integrates Gibberellin Signaling with Transcriptional Inputs from the SHR-SCR-SCL3 Module to Regulate Middle Cortex Formation in the Arabidopsis Root.
    Plant Physiol., 2016. 170(3): p. 1675-83
    [PMID:26818732]
  2. Lee SA, et al.
    Interplay between ABA and GA Modulates the Timing of Asymmetric Cell Divisions in the Arabidopsis Root Ground Tissue.
    Mol Plant, 2016. 9(6): p. 870-84
    [PMID:26970019]
  3. Choi JW,Lim J
    Control of Asymmetric Cell Divisions during Root Ground Tissue Maturation.
    Mol. Cells, 2016. 39(7): p. 524-9
    [PMID:27306644]