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 Pavir.9KG512500.1.p
Organism
Panicum virgatum
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Panicodae; Paniceae; Panicinae; Panicum
Family GRAS
Protein Properties Length: 559aa    MW: 59302.7 Da    PI: 5.1152
Description GRAS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.9KG512500.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1GRAS305.11.7e-931195101373
                 GRAS   1 lvelLlecAeavss..gdlelaqalLarlselaspdgd.....pmqRlaayfteALaarlarsvs....elykalppsetseknsseela 79 
                          l +lL+++Aea+s   ++ ela+ +L rl++++s  gd     +m+Rlaa+ft AL+  l +s +    +  +a ++s+ s++++ ++l+
  Pavir.9KG512500.1.p 119 LLHLLMAAAEALSGphKSRELARVILVRLKQMVSHIGDsaavsNMERLAAHFTDALQGLLDGSHPvggaGRHAAAAASHHSHQHTGDVLT 208
                          579**********8557777************999998788889****************9976522112233345555555569999** PP

                 GRAS  80 alklfsevsPilkfshltaNqaIleavegeervHiiDfdisqGlQWpaLlqaLasRp..egppslRiTgvgspesgskeeleetgerLak 167
                          a+++++++sP++kf+h+taNqaIleav+g++rvH++D+di +G+QW++L+qa+ sRp   +pp+lRiT+v++   g +++++e g+rLa 
  Pavir.9KG512500.1.p 209 AFQMLQDMSPYMKFGHFTANQAILEAVAGDRRVHVVDYDIAEGVQWASLMQAMISRPdgVPPPHLRITAVSRGGGGGARAVQEAGRRLAA 298
                          *********************************************************777799*********7777************** PP

                 GRAS 168 fAeelgvpfefnvlvakrledleleeLrvkpgEalaVnlvlqlhrlldesvsles.erdevLklvkslsPkvvvvveqeadhnse..... 251
                          fA+++g pf+f     ++ e +++ + r+ +gE+l+ n+vl+      ++v  +     ++L  + +l +kvv+vve++    ++     
  Pavir.9KG512500.1.p 299 FAASIGQPFSFGQCRLDSDERFRPATVRMVKGETLIANCVLSQAAAT-RTVRRPTgSVASFLAGMATLGAKVVTVVEEDQGEPDKdeeea 387
                          *************9999************************777766.444444447999******************955522224455 PP

                 GRAS 252 .sFlerflealeyysalfdsleaklpreseerikvErellgreivnvvacegaerrerhetlekWrerleeaGFkpvplsekaakqakll 340
                            F++rf+e l+ ysa+ dslea++p++s+ r  vEr++l+++i  +v+ + ++   + e  + W e+++  GF++vpls ++ +qa+ll
  Pavir.9KG512500.1.p 388 rGFVARFMEELHRYSAVWDSLEAGFPTQSRMRGLVERAILAPNIAGAVSRAYRAVDSDGEARAGWGEWMRGNGFRAVPLSCFNHSQARLL 477
                          59**************************************************************************************** PP

                 GRAS 341 lrkvksdgyrveees.gslvlgWkdrpLvsvSaW 373
                          l  ++ dgy++ee s + +vlgWk r+L+s+S+W
  Pavir.9KG512500.1.p 478 LGLFN-DGYTMEETSpNKIVLGWKARRLLSASVW 510
                          *****.******88626777************** PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5098550.00893491IPR005202Transcription factor GRAS
PfamPF035145.7E-91119510IPR005202Transcription factor GRAS
Sequence ? help Back to Top
Protein Sequence    Length: 559 aa     Download sequence    Send to blast
MDVTMDDVPG DLDFSGCSST TTSSSSPSLD DGMGMYAWNG LSPVADWGSF CPDDGGQDLH  60
GLIESMLCDD TLADLHFPDE VYCCSNGSAP SSTTTTTPGT PVNDGDAAQG DGPEKGLRLL  120
HLLMAAAEAL SGPHKSRELA RVILVRLKQM VSHIGDSAAV SNMERLAAHF TDALQGLLDG  180
SHPVGGAGRH AAAAASHHSH QHTGDVLTAF QMLQDMSPYM KFGHFTANQA ILEAVAGDRR  240
VHVVDYDIAE GVQWASLMQA MISRPDGVPP PHLRITAVSR GGGGGARAVQ EAGRRLAAFA  300
ASIGQPFSFG QCRLDSDERF RPATVRMVKG ETLIANCVLS QAAATRTVRR PTGSVASFLA  360
GMATLGAKVV TVVEEDQGEP DKDEEEARGF VARFMEELHR YSAVWDSLEA GFPTQSRMRG  420
LVERAILAPN IAGAVSRAYR AVDSDGEARA GWGEWMRGNG FRAVPLSCFN HSQARLLLGL  480
FNDGYTMEET SPNKIVLGWK ARRLLSASVW APPPMSVPSS PAEGAFQPVG IAPASGGVGR  540
MEFDYIDSFL VEPAYALV*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_A1e-5312751226379Protein SCARECROW
5b3h_D1e-5312751226379Protein SCARECROW
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in roots, shoots and leaves. {ECO:0000269|PubMed:15961668}.
Functional Description ? help Back to Top
Source Description
UniProtTranscriptional regulator essential for Nod-factor-induced gene expression. Acts downstream of calcium spiking and DMI3, a calcium/calmodulin-dependent protein kinase (CCaMK). {ECO:0000269|PubMed:15961668}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.9KG512500.1.p
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Induced 24 hours after treatment with Nod factor or Sinorhizobium meliloti. {ECO:0000269|PubMed:15961668}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC2432290.0AC243229.1 Panicum virgatum clone PV_ABa011-H05, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025797459.10.0nodulation-signaling pathway 2 protein-like
SwissprotQ5NE241e-153NSP2_MEDTR; Nodulation-signaling pathway 2 protein
TrEMBLA0A2T7CEP50.0A0A2T7CEP5_9POAL; Uncharacterized protein
TrEMBLA0A3L6TIL10.0A0A3L6TIL1_PANMI; GRAS transcription factor
STRINGPavir.Ib01112.1.p0.0(Panicum virgatum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP75803148
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G08250.12e-96GRAS family protein
Publications ? help Back to Top
  1. 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]