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.5NG366600.1.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: 355aa    MW: 38575.1 Da    PI: 7.0223
Description GRAS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.5NG366600.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1GRAS282.41.3e-863834973374
                 GRAS  73 nsseelaalklfsevsPilkfshltaNqaIleavegeervHiiDfdisqGlQWpaLlqaLasRpegppslRiTgvgspesgskeeleetg 162
                          + +e +aa + f +++P+l+++  +aNq Ilea+e+e+ v ++D++   G+QW+ Ll+ La+Rpegpp+lR+T+v++    +k+ l +t+
  Pavir.5NG366600.1.p  38 TAAELAAACRHFLDLCPFLRLADAAANQSILEAMESEKIVPVVDLGGADGTQWLDLLHLLATRPEGPPHLRLTTVHE----HKDVLTQTA 123
                          46788899999******************************************************************....9******** PP

                 GRAS 163 erLakfAeelgvpfefnvlvakrledleleeLrvkpgEalaVnlvlqlhrll.......................desvsleserdevLk 229
                            L+k Ae l+vpf+fn+ v++rle+l++e+Lrvk+gEala+ ++lqlh ll                           +++s+ d++L 
  Pavir.5NG366600.1.p 124 VVLTKEAEPLDVPFQFNP-VVSRLEALDVESLRVKTGEALAITSSLQLHCLLasdgdsgggkdigkegkgsspesG-VSPSTSRADAFLG 211
                          ******************.7**************************************************998532.223344799**** PP

                 GRAS 230 lvkslsPkvvvvveqeadhnsesFlerflealeyysalfdsleaklpreseerikvErellgreivnvvacegaerrerhetlekWrerl 319
                          ++++lsPkv vv+eqea+ n + + e+f+eal+yy+alf++le+ +     + + vEr llg+ei+n+vac  +e   r+ +le+W  r+
  Pavir.5NG366600.1.p 212 TLWGLSPKVTVVTEQEASPNLAALTEQFVEALNYYAALFNCLEVVV----AHGARVERWLLGEEIKNIVACDSSE---RRVRLERWVVRM 294
                          *********************************************7....67788*******************9...666677****** PP

                 GRAS 320 eeaGFkpvplsekaakqaklllrkvksdgyrveeesgslvlgWkdrpLvsvSaWr 374
                          e aGF+ ++ls++a   a++  +    dg++v ee+gs++l+W+d++++svSaWr
  Pavir.5NG366600.1.p 295 EGAGFGRMALSYYALLLARRAAQGLCCDGFKVREEKGSFFLCWQDHAIFSVSAWR 349
                          ******************************************************8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5098538.8641329IPR005202Transcription factor GRAS
PfamPF035144.6E-8438349IPR005202Transcription factor GRAS
Sequence ? help Back to Top
Protein Sequence    Length: 355 aa     Download sequence    Send to blast
RRSPSASTRP SCAPARLPPA RRPCLPPARR PRLHPAPTAA ELAAACRHFL DLCPFLRLAD  60
AAANQSILEA MESEKIVPVV DLGGADGTQW LDLLHLLATR PEGPPHLRLT TVHEHKDVLT  120
QTAVVLTKEA EPLDVPFQFN PVVSRLEALD VESLRVKTGE ALAITSSLQL HCLLASDGDS  180
GGGKDIGKEG KGSSPESGVS PSTSRADAFL GTLWGLSPKV TVVTEQEASP NLAALTEQFV  240
EALNYYAALF NCLEVVVAHG ARVERWLLGE EIKNIVACDS SERRVRLERW VVRMEGAGFG  300
RMALSYYALL LARRAAQGLC CDGFKVREEK GSFFLCWQDH AIFSVSAWRG RHFD*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3g_A2e-413235185381Protein SCARECROW
5b3h_A2e-413235184380Protein SCARECROW
5b3h_D2e-413235184380Protein SCARECROW
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pvr.49011e-129callus| root| stem
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in seedlings, root epidermis, leaves, flowers and siliques. {ECO:0000269|PubMed:10341448, ECO:0000269|PubMed:18500650}.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor involved in plant development. {ECO:0000250}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.5NG366600.1.p
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_002456925.11e-179scarecrow-like protein 3
SwissprotQ9LPR81e-101SCL3_ARATH; Scarecrow-like protein 3
TrEMBLC5XHT91e-177C5XHT9_SORBI; Uncharacterized protein
STRINGSb03g045660.11e-178(Sorghum bicolor)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP60438176
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G50420.12e-44scarecrow-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]