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 mrna25548.1-v1.0-hybrid
Organism
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Rosales; Rosaceae; Rosoideae; Potentilleae; Fragariinae; Fragaria
Family GRAS
Protein Properties Length: 552aa    MW: 60864.8 Da    PI: 5.8808
Description GRAS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
mrna25548.1-v1.0-hybridgenomeGDRView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1GRAS260.36.8e-801585442374
                     GRAS   2 velLlecAeavssgdlelaqalLarlselaspdgdpmqRlaayfteALaarlarsvselykalppsetsekn....sseelaalkl 83 
                              ++lL  cA a++ g+l+++q+lL  l+elas +gd+++Rlaa+ ++AL ++l++++s  ++a ++s++  +     s+e  +++k 
  mrna25548.1-v1.0-hybrid 158 EQLLNPCASAITGGNLTRVQHLLYVLHELASLTGDANHRLAAHGLRALTHHLSSNSS--SSAPNASASVGNVvtfpSTEPRFFQKS 241
                              689**************************************************9332..222333333222233554444444444 PP

                     GRAS  84 ...fsevsPilkfshltaNqaIleavege....ervHiiDfdisqGlQWpaLlqaLasRp.egppslRiTgvgspesg........ 153
                                 f+evsP++ f + +aN+aIl+ ++ e    +++Hi+D+++s+G+QWp+Ll+aL+ R+ ++pp ++iT++g+++ +        
  mrna25548.1-v1.0-hybrid 242 llkFYEVSPWFAFPNNIANSAILQVLADEpnraSTLHIVDIGVSHGMQWPTLLEALTRRSgGPPPLVKITVIGASTVEndqnseap 327
                              577***********************9999888899************************55666********9776677776666 PP

                     GRAS 154 ..skeeleetgerLakfAeelgvpfefnvlvakrledleleeLrvkpgEalaVnlvlqlhrlldesvsleserdevLklvkslsPk 237
                                      ++  rL  fA+++++++++n l  ++l++l+ + ++ +++E+l+V+l+++lh+l +++ + e  r+e+L+++++++P+
  mrna25548.1-v1.0-hybrid 328 fsIGPLGDNYSARLLGFAKSMNINLQINRLDNQSLQTLNSQVIDASSDETLIVCLQFRLHQLNHNTPPGE--RTEFLSILRNMEPN 411
                              644445578999*****************9999*****************************96666655..5************* PP

                     GRAS 238 vvvvveqeadh..ns.esFlerflealeyysalfdsleaklpreseerikvErellgreivnvvacegaerrerhetlekWrerle 320
                               v+++e+++++  ns ++F+++f++ +ey + ++ds++a +    + r + Er++++ e+ ++++++g++    +e +ekW er++
  mrna25548.1-v1.0-hybrid 412 GVILSENNMECscNScGDFATGFSRQVEYLWRFLDSTSAAF----KGRESEERRVMEGEAAKALTNRGEM----NEGKEKWCERMK 489
                              *******97764354259*******************8876....7777777777888899999999998....9*********** PP

                     GRAS 321 eaGFkpvplsekaakqaklllrkvk.sdgyrveeesgslvlgWkdrpLvsvSaWr 374
                               +GF    ++e+a +  + llrk++ ++++rv+e++g++ l Wk++p+ ++S W+
  mrna25548.1-v1.0-hybrid 490 GVGFVGEGFGEDAIDGGRGLLRKYDsNWEMRVDEKDGCAGLWWKGQPVSFCSLWK 544
                              *************************9999*************************8 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5098538.274131523IPR005202Transcription factor GRAS
PfamPF035142.3E-77158544IPR005202Transcription 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: 552 aa     Download sequence    Send to blast
MITNEVPQPN PTSEQILDWL EDSVSFFPSF LDDPYHSNDY QWWEESQDLI HTNSNSLTNN  60
ANIVVAEDPV DSITQLPPSE ASKKRKSPDD PVSETSSHID RKANTGRHVN KVEKDIKKAI  120
DEVAAQPAKR TNNNKKGTGK GTGNNCNNGN SKEGRWAEQL LNPCASAITG GNLTRVQHLL  180
YVLHELASLT GDANHRLAAH GLRALTHHLS SNSSSSAPNA SASVGNVVTF PSTEPRFFQK  240
SLLKFYEVSP WFAFPNNIAN SAILQVLADE PNRASTLHIV DIGVSHGMQW PTLLEALTRR  300
SGGPPPLVKI TVIGASTVEN DQNSEAPFSI GPLGDNYSAR LLGFAKSMNI NLQINRLDNQ  360
SLQTLNSQVI DASSDETLIV CLQFRLHQLN HNTPPGERTE FLSILRNMEP NGVILSENNM  420
ECSCNSCGDF ATGFSRQVEY LWRFLDSTSA AFKGRESEER RVMEGEAAKA LTNRGEMNEG  480
KEKWCERMKG VGFVGEGFGE DAIDGGRGLL RKYDSNWEMR VDEKDGCAGL WWKGQPVSFC  540
SLWKTGNQHK L*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3g_B1e-4015154481473Protein SHORT-ROOT
5b3h_B4e-4115154427419Protein SHORT-ROOT
5b3h_E4e-4115154427419Protein 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
PlantRegMapmrna25548.1-v1.0-hybrid
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 -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_011457863.10.0PREDICTED: nodulation-signaling pathway 1 protein
SwissprotQ4VYC80.0NSP1_MEDTR; Nodulation-signaling pathway 1 protein
TrEMBLA0A2P6RYN60.0A0A2P6RYN6_ROSCH; Putative transcription factor GRAS family
STRINGXP_004292129.10.0(Fragaria vesca)
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-161GRAS 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]