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.5NG634000.1.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 SRS
Protein Properties Length: 359aa    MW: 36381.1 Da    PI: 7.8267
Description SRS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.5NG634000.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1DUF702216.27.5e-671132872154
               DUF702   2 rsgtasCqdCGnqakkdCaheRCRtCCksrgfdCathvkstWvpaakrrerqqqlaaasskaaasa...........aeaaskrkrelks 80 
                          +sg+++CqdCGnqakkdC h+RCRtCCksrgfdC+thvkstWvpaa+r erqq +a+ s++++ ++           +++ask++r    
  Pavir.5NG634000.1.p 113 GSGATTCQDCGNQAKKDCGHNRCRTCCKSRGFDCSTHVKSTWVPAARRLERQQLAASGSASSSPATatasaaaaaaaSASASKKPR--LL 200
                          57889**********************************************99988765544333335678888744444444454..56 PP

               DUF702  81 kkqsalsstklssaeskkeletss.............lPeevsseavfrcvrvssvddgeeelaYqtavsigGhvfkGiLydqGlee 154
                          ++q+++s+t++s+a+++++++t+s             lP++v+++avf+cvrv+s++dge+e+aYq+ v+i+Gh+fkG+LydqG+++
  Pavir.5NG634000.1.p 201 ASQTTTSHTSTSNATTPRSFDTTSshqaaadasfrdsLPRQVRAPAVFKCVRVTSIEDGEDEYAYQAMVTINGHLFKGFLYDQGPDD 287
                          999999***************9999************************************************************96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF051428.8E-62116286IPR007818Protein of unknown function DUF702
TIGRFAMsTIGR016238.0E-27118160IPR006510Zinc finger, lateral root primordium type 1
TIGRFAMsTIGR016241.6E-27238285IPR006511Lateral Root Primordium type 1, C-terminal
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009733Biological Processresponse to auxin
GO:0048364Biological Processroot development
GO:0042803Molecular Functionprotein homodimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 359 aa     Download sequence    Send to blast
MRQSAALNYG MPDVGMVVVA PAASFHHTHH HHHHHEAAAA ADPIFPLLSG GPCVLDPDAA  60
KSASGAPPGS AIQFWQPQSP SSAPAANPNP SASPFAYIKK PLPMLDTGAG SSGSGATTCQ  120
DCGNQAKKDC GHNRCRTCCK SRGFDCSTHV KSTWVPAARR LERQQLAASG SASSSPATAT  180
ASAAAAAAAS ASASKKPRLL ASQTTTSHTS TSNATTPRSF DTTSSHQAAA DASFRDSLPR  240
QVRAPAVFKC VRVTSIEDGE DEYAYQAMVT INGHLFKGFL YDQGPDDGRH AATSNDDSAA  300
GVPNISELHL GAASASVAGG SGVREGGSSM VPADLYGGGG GGGQHRILGG SSYGGTMN*
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pvr.177120.0root| stem
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Expressed during the early stages of root primordium development and disappears prior to the emergence of lateral roots from the parent root. {ECO:0000269|PubMed:7647564}.
UniprotTISSUE SPECIFICITY: Restricted to lateral root primordia. {ECO:0000269|PubMed:7647564}.
Functional Description ? help Back to Top
Source Description
UniProtTranscription activator that binds DNA on 5'-ACTCTAC-3' and promotes auxin homeostasis-regulating gene expression (e.g. YUC genes), as well as genes affecting stamen development, cell expansion and timing of flowering. Synergistically with other SHI-related proteins, regulates gynoecium, stamen and leaf development in a dose-dependent manner, controlling apical-basal patterning. Promotes style and stigma formation, and influence vascular development during gynoecium development. May also have a role in the formation and/or maintenance of the shoot apical meristem (SAM). Modulates root growth. {ECO:0000269|PubMed:16740146, ECO:0000269|PubMed:18835563}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.5NG634000.1.p
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Expression repressed by LDL1 via histone H3 and H4 deacetylation. {ECO:0000269|PubMed:18835563}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankHQ8587810.0HQ858781.1 Zea mays clone UT1767 SRS transcription factor mRNA, partial cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025818814.11e-173protein LATERAL ROOT PRIMORDIUM 1
SwissprotQ94CK94e-61LRP1_ARATH; Protein LATERAL ROOT PRIMORDIUM 1
TrEMBLA0A2T7DBH91e-172A0A2T7DBH9_9POAL; Uncharacterized protein
STRINGPavir.Eb03954.1.p0.0(Panicum virgatum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP35793679
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G12330.22e-46Lateral root primordium (LRP) protein-related
Publications ? help Back to Top
  1. Estornell LH,Landberg K,Cierlik I,Sundberg E
    SHI/STY Genes Affect Pre- and Post-meiotic Anther Processes in Auxin Sensing Domains in Arabidopsis.
    Front Plant Sci, 2018. 9: p. 150
    [PMID:29491878]