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 Pavir.9NG665600.1.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: 565aa    MW: 59889.4 Da    PI: 5.103
Description GRAS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.9NG665600.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1GRAS302.69.3e-931225111373
                 GRAS   1 lvelLlecAeavss..gdlelaqalLarlselaspdgd.....pmqRlaayfteALaarlarsvs..elykalppsetseknsseelaal 81 
                          l +lL+++Aea+s   ++ ela+ +L rl++++s  gd     +m+Rlaa+ft AL+  l +s +  +  +  ++ +++++++ ++l+a+
  Pavir.9NG665600.1.p 122 LLHLLMAAAEALSGphKSRELARVILVRLKQMVSHIGDngavsNMERLAAHFTDALQGLLDGSHPvgGAGRHAAAAASHHQHTGDVLTAF 211
                          579**********8557777***************998899999*****************9655225566667777777789******* PP

                 GRAS  82 klfsevsPilkfshltaNqaIleavegeervHiiDfdisqGlQWpaLlqaLasRp..egppslRiTgvgspesgskeeleetgerLakfA 169
                          ++++++sP++kf+h+taNqaIleav+g++rvH++D+di +G+QW++L+qa+ sRp   +pp+lRiT+v++   g +++++e g+rLa fA
  Pavir.9NG665600.1.p 212 QMLQDMSPYMKFGHFTANQAILEAVAGDRRVHVVDYDIAEGVQWASLMQAMISRPdgVPPPHLRITAVSRGGGGGARAVQEAGRRLAAFA 301
                          *******************************************************777799*********7777**************** PP

                 GRAS 170 eelgvpfefnvlvakrledleleeLrvkpgEalaVnlvlqlhrlldesvsles.erdevLklvkslsPkvvvvveqeadhnse......s 252
                          +++g pf+f     ++ e +++ + r+ +gE+l+ n+vl+       +v  +     ++L  + +l +kvv+vve++    ++       
  Pavir.9NG665600.1.p 302 ASIGQPFSFGQCRLDSDERFRPATVRMVKGETLVANCVLNQAAAT-TTVRRPTgSVASFLAGMATLGAKVVTVVEEDQGEPDKdkeeagG 390
                          ***********9999************************877776.444444347999******************95542222445559 PP

                 GRAS 253 FlerflealeyysalfdsleaklpreseerikvErellgreivnvvacegaerrerhetlekWrerleeaGFkpvplsekaakqaklllr 342
                          F++rf+e l+ ysa+ dslea++p++s+ r  vEr +l+++i  +v+ + ++   +    + W e+++  GF++vpls ++ +qa+lll 
  Pavir.9NG665600.1.p 391 FVARFMEELHRYSAVWDSLEAGFPTQSRVRGLVERTILAPNIAGAVSRAYRAVDGDGAARAGWGEWMRGNGFRAVPLSCFNHSQARLLLG 480
                          ****************************************************************************************** PP

                 GRAS 343 kvksdgyrveees.gslvlgWkdrpLvsvSaW 373
                           ++ dgy++ee s + +vlgWk r+L+s+S+W
  Pavir.9NG665600.1.p 481 LFN-DGYTMEETSpNKIVLGWKARRLLSASVW 511
                          ***.******88626777************** PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5098549.78696492IPR005202Transcription factor GRAS
PfamPF035143.2E-90122511IPR005202Transcription factor GRAS
Sequence ? help Back to Top
Protein Sequence    Length: 565 aa     Download sequence    Send to blast
MDVTMDDMPG DLDFSGCSST TTSSSSPSLD DGMGMYAWNG LSPVADWGSF CPDDSSQDLH  60
GLIESMLCDD TLADLHPAMF PDEVYCCTNG SAPSSTTTTN PGTPVNDGDA AQGDGPEKGL  120
RLLHLLMAAA EALSGPHKSR ELARVILVRL KQMVSHIGDN GAVSNMERLA AHFTDALQGL  180
LDGSHPVGGA GRHAAAAASH HQHTGDVLTA FQMLQDMSPY MKFGHFTANQ AILEAVAGDR  240
RVHVVDYDIA EGVQWASLMQ AMISRPDGVP PPHLRITAVS RGGGGGARAV QEAGRRLAAF  300
AASIGQPFSF GQCRLDSDER FRPATVRMVK GETLVANCVL NQAAATTTVR RPTGSVASFL  360
AGMATLGAKV VTVVEEDQGE PDKDKEEAGG FVARFMEELH RYSAVWDSLE AGFPTQSRVR  420
GLVERTILAP NIAGAVSRAY RAVDGDGAAR AGWGEWMRGN GFRAVPLSCF NHSQARLLLG  480
LFNDGYTMEE TSPNKIVLGW KARRLLSASV WAPPPLSVPS SPAEGAFQPV GIAPASGGVG  540
RMEFDYIDSF LVEPAYALVW SWLG*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3g_A4e-5211751314380Protein 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.9NG665600.1.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-158NSP2_MEDTR; Nodulation-signaling pathway 2 protein
TrEMBLA0A2T7CEP50.0A0A2T7CEP5_9POAL; Uncharacterized protein
STRINGPavir.Ia03522.1.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
AT4G08250.17e-91GRAS 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]