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.J040300.1.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: 278aa    MW: 30019.6 Da    PI: 6.6755
Description MYB family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.J040300.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding59.57.2e-191461148
                       TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS
    Myb_DNA-binding  1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48
                       rg+W++eEd++l+ +++q+G ++W++ +r  g+ R++k+c++rw +yl
  Pavir.J040300.1.p 14 RGAWSPEEDQRLAAYIRQHGHPNWRALPRQAGLLRCGKSCRLRWINYL 61
                       89******************************99************97 PP
2Myb_DNA-binding45.41.9e-1467111147
                        TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHH CS
    Myb_DNA-binding   1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqky 47 
                        rg+++++E+ l+v+++ +lG++ W++Ia+ ++ gRt++++k+ w+++
  Pavir.J040300.1.p  67 RGNFSADEEALIVRLHCELGNR-WSAIAAQLP-GRTDNEIKNVWHTH 111
                        89********************.*********.***********987 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:1.10.10.605.0E-24564IPR009057Homeodomain-like
PROSITE profilePS5129416.452961IPR017930Myb domain
SuperFamilySSF466894.12E-2811108IPR009057Homeodomain-like
SMARTSM007178.5E-131363IPR001005SANT/Myb domain
PfamPF002498.2E-161461IPR001005SANT/Myb domain
CDDcd001671.31E-101661No hitNo description
PROSITE profilePS5129423.10962116IPR017930Myb domain
Gene3DG3DSA:1.10.10.601.1E-2465116IPR009057Homeodomain-like
SMARTSM007171.1E-1166114IPR001005SANT/Myb domain
PfamPF002495.2E-1367111IPR001005SANT/Myb domain
CDDcd001678.82E-969112No 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: 278 aa     Download sequence    Send to blast
MGRAPCCEKE GLRRGAWSPE EDQRLAAYIR QHGHPNWRAL PRQAGLLRCG KSCRLRWINY  60
LRPDIKRGNF SADEEALIVR LHCELGNRWS AIAAQLPGRT DNEIKNVWHT HIKKRLEEDP  120
EGGASAGGRQ KKQKARKSKP AAPKNKKQAA AADNSETFMT ASPGLSSSVS SGVTTFSTAA  180
ESTAAVSSGD TAATTSASPQ TGAAKADTEM ESFSSAEFPP IDESFWSSPD VVDMGLGAMD  240
EELGLAGPPS AATRDEDMEF WLKMLLESGD MRDLSVL*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1a5j_A8e-24121175109B-MYB
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtTranscriptional activator involved in cold stress response (PubMed:14675437, PubMed:20807373, PubMed:22246661). Regulates positively the expression of genes involved in reactive oxygen species (ROS) scavenging such as peroxidase and superoxide dismutase during cold stress. Transactivates a complex gene network that have major effects on stress tolerance and panicle development (PubMed:20807373). {ECO:0000269|PubMed:14675437, ECO:0000269|PubMed:20807373, ECO:0000269|PubMed:22246661}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.J040300.1.p
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By cold stress. {ECO:0000269|PubMed:14675437, ECO:0000269|PubMed:20807373, ECO:0000269|Ref.2}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankHF6794081e-165HF679408.1 Saccharum hybrid cultivar Co 86032 mRNA for ScMYB2 protein.
GenBankJQ2554781e-165JQ255478.1 Saccharum hybrid cultivar Co 86032 MYB46 (MYB46) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025798367.11e-167transcription factor MYB30-like
SwissprotQ7XBH43e-78MYB4_ORYSJ; Transcription factor MYB4
TrEMBLA0A3L6SD251e-171A0A3L6SD25_PANMI; Myb-related protein Myb4-like
STRINGPavir.J09313.1.p0.0(Panicum virgatum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP7938563
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G23250.18e-69myb domain protein 15
Publications ? help Back to Top
  1. Park MR, et al.
    Supra-optimal expression of the cold-regulated OsMyb4 transcription factor in transgenic rice changes the complexity of transcriptional network with major effects on stress tolerance and panicle development.
    Plant Cell Environ., 2010. 33(12): p. 2209-30
    [PMID:20807373]
  2. Soltész A, et al.
    The rice Osmyb4 gene enhances tolerance to frost and improves germination under unfavourable conditions in transgenic barley plants.
    J. Appl. Genet., 2012. 53(2): p. 133-43
    [PMID:22246661]