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.6KG315700.1.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: 328aa    MW: 34268.4 Da    PI: 5.8371
Description MYB family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.6KG315700.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding60.92.8e-191461148
                         TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS
      Myb_DNA-binding  1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48
                         +g+WT+eEde+l++++++ G g+W+t +r  g++R++k+c++rw +yl
  Pavir.6KG315700.1.p 14 KGPWTPEEDERLLQYIQKNGHGSWRTLPRLAGLNRCGKSCRLRWTNYL 61
                         79********************************************97 PP
2Myb_DNA-binding54.33.2e-1767112148
                          TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS
      Myb_DNA-binding   1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48 
                          rg++++eE++ +++++  lG++ W++Ia +++ gRt++++k++w+++l
  Pavir.6KG315700.1.p  67 RGKFSQEEEQTILHLHSVLGNK-WSAIATHLP-GRTDNEIKNFWNTHL 112
                          89********************.*********.************996 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:1.10.10.605.9E-25564IPR009057Homeodomain-like
PROSITE profilePS5129418.822961IPR017930Myb domain
SuperFamilySSF466899.61E-3211108IPR009057Homeodomain-like
SMARTSM007178.4E-151363IPR001005SANT/Myb domain
PfamPF002495.1E-171461IPR001005SANT/Myb domain
CDDcd001671.29E-111661No hitNo description
PROSITE profilePS5129426.67862116IPR017930Myb domain
Gene3DG3DSA:1.10.10.601.6E-2765117IPR009057Homeodomain-like
SMARTSM007172.5E-1666114IPR001005SANT/Myb domain
PfamPF002494.0E-1667112IPR001005SANT/Myb domain
CDDcd001672.69E-1269112No 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: 328 aa     Download sequence    Send to blast
MGRSPCCDES GLKKGPWTPE EDERLLQYIQ KNGHGSWRTL PRLAGLNRCG KSCRLRWTNY  60
LRPDIKRGKF SQEEEQTILH LHSVLGNKWS AIATHLPGRT DNEIKNFWNT HLKKRLIQMG  120
FDPMTHRPRT DFFAALPQLI ALAALRDQLA ADPAASAHLQ AGGGAAAAGV DVAIQTAKLQ  180
YLQCLLQSAA TTIDGIASTA AAGSTADAEA AALGGALCSP QGTQDSTAAP VSAASGQQLL  240
PSCTFPEAPV SSEADQGLSY GGGAGVDVFV CHGGASLPPL ADLSDAANNP SGDGCSATAS  300
SSFGGGAVSP LPWPEFFPDD PFITDFL*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1gv2_A3e-31121162105MYB PROTO-ONCOGENE PROTEIN
1mse_C3e-31121162105C-Myb DNA-Binding Domain
1msf_C3e-31121162105C-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.6KG315700.1.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 -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankKJ7283091e-175KJ728309.1 Zea mays clone pUT6589 MYB transcription factor (MYB63) mRNA, partial cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025820029.10.0transcription factor MYB93-like
SwissprotQ9S9Z21e-100MYB93_ARATH; Transcription factor MYB93
TrEMBLA0A3L6PQU10.0A0A3L6PQU1_PANMI; Myb-related protein Hv33-like
TrEMBLA0A3L6RM240.0A0A3L6RM24_PANMI; Myb-related protein Hv33-like
STRINGPavir.Fa00604.1.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
AT1G34670.13e-86myb 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]