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.5NG036400.1.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_related
Protein Properties Length: 312aa    MW: 32859.8 Da    PI: 10.6274
Description MYB_related family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.5NG036400.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding48.22.5e-15115159347
                          SS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHH CS
      Myb_DNA-binding   3 rWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqky 47 
                          +WT++E+++++ + ++lG g+W+ I+r++ ++Rt+ q+ s+ qky
  Pavir.5NG036400.1.p 115 PWTEDEHQRFLAGLEKLGRGDWRGISRHFVTTRTPTQVASHAQKY 159
                          8*******************************************9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS501588.68318IPR001878Zinc finger, CCHC-type
PROSITE profilePS5129419.724108164IPR017930Myb domain
SuperFamilySSF466895.68E-18109165IPR009057Homeodomain-like
TIGRFAMsTIGR015578.7E-19111163IPR006447Myb domain, plants
Gene3DG3DSA:1.10.10.602.7E-11112158IPR009057Homeodomain-like
SMARTSM007172.0E-11112162IPR001005SANT/Myb domain
CDDcd001677.18E-10115160No hitNo description
PfamPF002492.5E-12115159IPR001005SANT/Myb domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0003677Molecular FunctionDNA binding
GO:0008270Molecular Functionzinc ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 312 aa     Download sequence    Send to blast
MARKCSSCGN NGHNSRTCSG HGGRVAEHGG GVRLFGVQLH VGPSSPLKKC FSMECLSSAA  60
PPAYFAAALA ASSSSPSVSP SSSLVSVEEN ADKVNNGYLS DGLMGRAQER KKGVPWTEDE  120
HQRFLAGLEK LGRGDWRGIS RHFVTTRTPT QVASHAQKYF LRQSSLTQKK RRSSLFDVVE  180
NAGRATSSVP PDAELPALSL GISRPAKPER VLPPSLSSLL PRCSAATSSG SGSTSPSGIA  240
APKRKHPSSS LTPVSKPHQA PDLELKISTA DHQTGSSPRT PFLGIGPSGS HNHNRKDGGR  300
RSVEHETSIR C*
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pvr.40230.0leaf
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in all tissues, with the highest level in senescent leaves. {ECO:0000269|PubMed:12172034}.
Functional Description ? help Back to Top
Source Description
UniProtTranscription repressor that binds to 5'-TATCCA-3' elements in gene promoters. Contributes to the sugar-repressed transcription of promoters containing SRS or 5'-TATCCA-3' elements. Transcription repressor involved in a cold stress response pathway that confers cold tolerance. Suppresses the DREB1-dependent signaling pathway under prolonged cold stress. DREB1 responds quickly and transiently while MYBS3 responds slowly to cold stress. They may act sequentially and complementarily for adaptation to short- and long-term cold stress (PubMed:20130099). {ECO:0000269|PubMed:12172034, ECO:0000269|PubMed:20130099}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.5NG036400.1.p
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Repressed by sucrose and gibberellic acid (GA) (PubMed:12172034). Induced by cold stress in roots and shoots. Induced by salt stress in shoots. Down-regulated by abscisic aci (ABA) in shoots (PubMed:20130099). {ECO:0000269|PubMed:12172034, ECO:0000269|PubMed:20130099}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankEU9670991e-141EU967099.1 Zea mays clone 299455 mRNA sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025818314.11e-143transcription factor MYBS3-like
SwissprotQ7XC572e-48MYBS3_ORYSJ; Transcription factor MYBS3
TrEMBLA0A2S3HYJ51e-141A0A2S3HYJ5_9POAL; Uncharacterized protein
STRINGPavir.Eb00103.1.p0.0(Panicum virgatum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP42313873
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G56840.11e-44MYB_related family protein
Publications ? help Back to Top
  1. Rice Chromosome 10 Sequencing Consortium
    In-depth view of structure, activity, and evolution of rice chromosome 10.
    Science, 2003. 300(5625): p. 1566-9
    [PMID:12791992]
  2. Kikuchi S, et al.
    Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice.
    Science, 2003. 301(5631): p. 376-9
    [PMID:12869764]
  3. Su CF, et al.
    A novel MYBS3-dependent pathway confers cold tolerance in rice.
    Plant Physiol., 2010. 153(1): p. 145-58
    [PMID:20130099]