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.1NG348800.1.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: 146aa    MW: 15512.4 Da    PI: 6.4981
Description GRAS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.1NG348800.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1GRAS41.91.6e-135122262371
                 GRAS 262 eyysalfdsleaklpreseerikvEre.llgreivnvvacegaerrerhetlekWrerlee..aG......Fk.pvplsekaakqaklll 341
                          +yy +lfdsl+a+ +++ +e ++v+ +  l+ ei+nv+a    +       +++Wrer ++   G      +  +++ + + a+qa+lll
  Pavir.1NG348800.1.p   5 HYYYVLFDSLDASCSEDRQEHHVVDPApALSGEIRNVLAVGAPA---TSSPAASWRERSSSrsRGsacaasLAsSAATQASDAAQASLLL 91 
                          8***********************965389**********9998...7888999*99976522331111112212333444567899*** PP

                 GRAS 342 rkvksdgyrveeesgslv.lgWkdrpLvsvS 371
                           +++  gy++ ee+g+l  lgWkd  L+++S
  Pavir.1NG348800.1.p  92 GMFPTGGYTLVEENGALEqLGWKDLCLLTAS 122
                          *****************99**********99 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF035145.3E-115122IPR005202Transcription factor GRAS
Sequence ? help Back to Top
Protein Sequence    Length: 146 aa     Download sequence    Send to blast
MRVPHYYYVL FDSLDASCSE DRQEHHVVDP APALSGEIRN VLAVGAPATS SPAASWRERS  60
SSRSRGSACA ASLASSAATQ ASDAAQASLL LGMFPTGGYT LVEENGALEQ LGWKDLCLLT  120
ASTRSPIRGQ ISNIWYLSMP LVHCR*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3g_A4e-285126268380Protein SCARECROW
5b3h_A4e-285126267379Protein SCARECROW
5b3h_D4e-285126267379Protein SCARECROW
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in the initial daughter cell before its asymmetric division and remains expressed in the endodermal cell layer after the division. {ECO:0000269|PubMed:17446396}.
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor required for quiescent center cells specification and maintenance of surrounding stem cells, and for the asymmetric cell division involved in radial pattern formation in roots. Essential for cell division but not differentiation of the ground tissue. Regulates the radial organization of the shoot axial organs. Restricts SHR movment and sequesters it into the nucleus of the endodermis (By similarity). {ECO:0000250, ECO:0000269|PubMed:17446396}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.1NG348800.1.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_020254123.11e-31protein SCARECROW 1-like, partial
RefseqXP_020598478.11e-30protein SCARECROW
SwissprotQ2RB591e-31SCR1_ORYSJ; Protein SCARECROW 1
TrEMBLA0A426X7E13e-33A0A426X7E1_ENSVE; Uncharacterized protein
STRINGOGLUM12G01020.12e-33(Oryza glumipatula)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G54220.16e-21GRAS family protein