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.4KG217600.1.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 MYB
Protein Properties Length: 360aa    MW: 40160.5 Da    PI: 7.3563
Description MYB family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.4KG217600.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding55.31.5e-1753100148
                          TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS
      Myb_DNA-binding   1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48 
                          +g+WT eEd++l ++++++G g+W++ ++  g++R++k+c++rw +yl
  Pavir.4KG217600.1.p  53 KGPWTLEEDDKLMNYIQKHGHGSWRALPELAGLNRCGKSCRLRWTNYL 100
                          79********************************************97 PP
2Myb_DNA-binding52.89.4e-17106151148
                          TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS
      Myb_DNA-binding   1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48 
                          rg+++++E++ +++++  lG++ W++Ia+ ++ gRt++++k++w+++l
  Pavir.4KG217600.1.p 106 RGKFSKDEEQTILQLHSILGNK-WSAIAKNLP-GRTDNEIKNFWNTHL 151
                          89********************.*********.************996 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:1.10.10.601.2E-2544103IPR009057Homeodomain-like
PROSITE profilePS5129417.4248100IPR017930Myb domain
SuperFamilySSF466894.12E-3150147IPR009057Homeodomain-like
SMARTSM007177.6E-1452102IPR001005SANT/Myb domain
PfamPF002491.4E-1653100IPR001005SANT/Myb domain
CDDcd001676.77E-1155100No hitNo description
PROSITE profilePS5129426.702101155IPR017930Myb domain
Gene3DG3DSA:1.10.10.608.4E-27104156IPR009057Homeodomain-like
SMARTSM007171.3E-16105153IPR001005SANT/Myb domain
PfamPF002497.2E-16106151IPR001005SANT/Myb domain
CDDcd001679.94E-13108151No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 360 aa     Download sequence    Send to blast
MSYALVPRSS EIQQAQTSRG RQILSRHLLA FVLSCYNPSM GRPPCCDEKG LKKGPWTLEE  60
DDKLMNYIQK HGHGSWRALP ELAGLNRCGK SCRLRWTNYL RPDIKRGKFS KDEEQTILQL  120
HSILGNKWSA IAKNLPGRTD NEIKNFWNTH LRKKLIQMGI DPMTHRPRTD FFAALPQLIA  180
LANLHQLIEQ QQWDGHITMP QTEALAANHQ YMQTMFQTAA SITANPTTIS SLTADLEQIS  240
HLNPQHMFSS TLLGSTGGED VARQVPHSQM PSAFFDQPVS NINLSSDNNV SSSEQCHIEG  300
GSSSRKSMLL SENSLPPLTD MSASNPCNVI STSKCGASST LSPSWSEILL DEELMREFE*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1a5j_A7e-29511555108B-MYB
1mse_C7e-29511552105C-Myb DNA-Binding Domain
1msf_C7e-29511552105C-Myb DNA-Binding Domain
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Specifically and transiently expressed in root endodermal cells overlying the early stages of lateral root primordia formation. {ECO:0000269|PubMed:24902892, ECO:0000269|PubMed:25482809}.
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor that acts as negative regulator of lateral root (LR) development. Required for normal auxin responses during LR development. May be part of a negative feedback loop stimulated specifically in the endodermis upon LR initiation to ensure that LRs are formed only in the correct place. {ECO:0000269|PubMed:24902892}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.4KG217600.1.p
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Induced by abscisic acid (ABA), auxin and gravity in roots. {ECO:0000269|PubMed:24902892}.
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_025811434.10.0transcription factor MYB93-like
SwissprotQ9S9Z25e-99MYB93_ARATH; Transcription factor MYB93
TrEMBLA0A2T7E0M50.0A0A2T7E0M5_9POAL; Uncharacterized protein
STRINGPavir.Da01312.1.p0.0(Panicum virgatum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP112637132
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G34670.11e-101myb domain protein 93
Publications ? help Back to Top
  1. Gibbs DJ,Coates JC
    AtMYB93 is an endodermis-specific transcriptional regulator of lateral root development in arabidopsis.
    Plant Signal Behav, 2014. 9(10): p. e970406
    [PMID:25482809]