PlantTFDB
Plant Transcription Factor Database
v5.0
Previous version: v3.0 v4.0
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Vradi09g02510.1
Organism
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fabales; Fabaceae; Papilionoideae; Phaseoleae; Vigna
Family GRAS
Protein Properties Length: 541aa    MW: 59649.7 Da    PI: 6.0024
Description GRAS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Vradi09g02510.1genomeSNUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1GRAS250.18.4e-771535272374
             GRAS   2 velLlecAeavssgdlelaqalLarlselaspdgdpmqRlaayfteALaarlarsvselykalppsetseknsseelaalklfsevsPilkfsh 95 
                      ++lL  cA a++ g+l+++q+lL  l+elasp+gd+++Rlaa+ ++AL ++l++s  ++++   + +++e       + l  f+evsP++ f +
  Vradi09g02510.1 153 EQLLNPCAAAITGGNLTRVQHLLYVLHELASPTGDANHRLAAHGLKALTHHLSSSLASTSSGSMTFASTE--PRFFQKTLLKFYEVSPWFSFPN 244
                      689***************************************************7777776655555552..3333333334************ PP

             GRAS  96 ltaNqaIleavege....ervHiiDfdisqGlQWpaLlqaLasRp.egppslRiTgvgspesg......skeeleetgerLakfAeelgvpfef 178
                       +aN  Il+ + ++    +++Hi+D+++s+G+QWp++l+aL+ Rp ++pp +R+T+v +++++            +  +rL  fA+ ++v++++
  Vradi09g02510.1 245 NIANASILQVLGEDndnsRTLHILDIGASHGMQWPTFLEALSRRPgGPPPLVRLTVVTASSTEidtpfsIGPPGDNFSSRLLGFAQLMNVNLQI 338
                      *********997766666899************************55566*********8888998888788899******************* PP

             GRAS 179 nvlvakrledleleeLrvkpgEalaVnlvlqlhrlldesvsleserdevLklvkslsPkvvvvveqeadh...nsesFlerflealeyysalfd 269
                      + l    l++l+ ++ +++p+E  +V+ +++lh+l ++s++ +   +e+Lk+v++++Pk v+++++++++   + ++F+ +f++ +ey ++++d
  Vradi09g02510.1 339 KRLDNCPLHTLSAQSVDTSPDEIFVVCAQFRLHQLSHNSTDEK---REFLKVVRNMEPKGVILSDNNMECccsGCGDFAMGFSRRVEYLWKFLD 429
                      **8777*****************************95555555...5********************887644566****************** PP

             GRAS 270 sl.eaklpreseerikvErellgreivnvvacegaerrerhetlekWrerleeaGFkpvplsekaakqaklllrkvk.sdgyrveeesgslvlg 361
                      s+ +a  +r+s+er+++E      e+ ++++++ ++    +e +ekW er++eaGF    l+e+a +  ++llrk++ +++++ve+++ s+ l 
  Vradi09g02510.1 430 STsSAFKGRDSDERRVMEG-----EAAKALTNQREM----NEGKEKWCERMKEAGFVGEVLGEDAIDGGRALLRKYDtNWEMKVEDDNTSVGLW 514
                      **44444555566666555.....577777777666....99***********************************9999************* PP

             GRAS 362 WkdrpLvsvSaWr 374
                      Wk++p+ +++ W+
  Vradi09g02510.1 515 WKGQPVSFCTLWK 527
                      ************8 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5098538.819126506IPR005202Transcription factor GRAS
PfamPF035142.9E-74153527IPR005202Transcription factor GRAS
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0042446Biological Processhormone biosynthetic process
GO:2000032Biological Processregulation of secondary shoot formation
Sequence ? help Back to Top
Protein Sequence    Length: 541 aa     Download sequence    Send to blast
MIMEPNPTSD HSLDWFEGSV SFFPLPPFLD DPYNCTDIQL WDQDISSHYQ TDANTSSPNA  60
TNIATSTTPP EPCASNNLPL SDLPKKRSAT DDSSLRQPQN HKHKKIKSKP LNNEADSGDA  120
EGTTTVRKPG GNKRGAAKGV ANNCNNKEGR WAEQLLNPCA AAITGGNLTR VQHLLYVLHE  180
LASPTGDANH RLAAHGLKAL THHLSSSLAS TSSGSMTFAS TEPRFFQKTL LKFYEVSPWF  240
SFPNNIANAS ILQVLGEDND NSRTLHILDI GASHGMQWPT FLEALSRRPG GPPPLVRLTV  300
VTASSTEIDT PFSIGPPGDN FSSRLLGFAQ LMNVNLQIKR LDNCPLHTLS AQSVDTSPDE  360
IFVVCAQFRL HQLSHNSTDE KREFLKVVRN MEPKGVILSD NNMECCCSGC GDFAMGFSRR  420
VEYLWKFLDS TSSAFKGRDS DERRVMEGEA AKALTNQREM NEGKEKWCER MKEAGFVGEV  480
LGEDAIDGGR ALLRKYDTNW EMKVEDDNTS VGLWWKGQPV SFCTLWKLDA NDQSSTFTSS  540
*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3g_B3e-4114952784473Protein SHORT-ROOT
5b3h_B2e-4114952730419Protein SHORT-ROOT
5b3h_E2e-4114952730419Protein SHORT-ROOT
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtTranscriptional regulator essential for Nod-factor-induced gene expression. Acts downstream of calcium spiking. May be a target of DMI3, a calcium/calmodulin-dependent protein kinase (CCaMK) (PubMed:15961669). Is essential for Nod factor-elicited expression of ERN1 (PubMed:23077241). {ECO:0000269|PubMed:15961669, ECO:0000269|PubMed:23077241}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapVradi09g02510.1
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Not induced after treatment with Sinorhizobium meliloti. {ECO:0000269|PubMed:15961669}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAP0150420.0AP015042.1 Vigna angularis var. angularis DNA, chromosome 9, almost complete sequence, cultivar: Shumari.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_014516188.10.0scarecrow-like protein 29
SwissprotQ4VYC80.0NSP1_MEDTR; Nodulation-signaling pathway 1 protein
TrEMBLA0A1S3VCV50.0A0A1S3VCV5_VIGRR; scarecrow-like protein 29
STRINGXP_007135437.10.0(Phaseolus vulgaris)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF68743447
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G13840.11e-155GRAS family protein
Publications ? help Back to Top
  1. Cerri MR, et al.
    Medicago truncatula ERN transcription factors: regulatory interplay with NSP1/NSP2 GRAS factors and expression dynamics throughout rhizobial infection.
    Plant Physiol., 2012. 160(4): p. 2155-72
    [PMID:23077241]
  2. Tang H, et al.
    An improved genome release (version Mt4.0) for the model legume Medicago truncatula.
    BMC Genomics, 2014. 15: p. 312
    [PMID:24767513]