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.7NG262700.1.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 bHLH
Protein Properties Length: 96aa    MW: 11218 Da    PI: 9.9684
Description bHLH family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.7NG262700.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1HLH57.62.2e-182268455
                         HHHHHHHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS
                  HLH  4 ahnerErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55
                          hn  ErrRRdriN+++  L+ellP++     +K +K+++L +A++Y+ksLq
  Pavir.7NG262700.1.p 22 FHNFSERRRRDRINEKLKALQELLPNC-----TKTDKVSMLDEAIDYLKSLQ 68
                         59*************************.....9******************9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:4.10.280.101.5E-201576IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
PROSITE profilePS5088818.5271867IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
SuperFamilySSF474594.84E-222193IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
CDDcd000832.48E-162172No hitNo description
PfamPF000101.1E-152268IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
SMARTSM003531.7E-182473IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0046983Molecular Functionprotein dimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 96 aa     Download sequence    Send to blast
MEDGSVPRRS TPPTRRSRSA EFHNFSERRR RDRINEKLKA LQELLPNCTK TDKVSMLDEA  60
IDYLKSLQLQ LQMLVMGKGM APVVPPELQQ YMHYIT
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
12631ERRRRD
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pvr.317751e-163callus
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Highly expressed in the node portions of the stem. Expressed in the leaves and the basal part of shoots. {ECO:0000269|PubMed:22984180}.
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor that may act as negative regulator of phyB-dependent light signal transduction (PubMed:17485859). Transcription activator that acts as positive regulator of internode elongation. May function via regulation of cell wall-related genes. May play a role in a drought-associated growth-restriction mechanism in response to drought stress (PubMed:22984180). {ECO:0000269|PubMed:17485859, ECO:0000269|PubMed:22984180}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.7NG262700.1.p
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Induced by light in dark-grown etiolated seedlings (PubMed:17485859). Circadian oscillation under 12 h light/12 h dark cycle conditions, with peaks in the middle of the light period (PubMed:17485859, PubMed:22984180). Down-regulated by cold and drought stresses (PubMed:22984180). {ECO:0000269|PubMed:17485859, ECO:0000269|PubMed:22984180}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankEU9524834e-95EU952483.1 Zea mays clone 1281977 protein SPATULA mRNA, complete cds.
GenBankEU9542884e-95EU954288.1 Zea mays clone 1461253 protein SPATULA mRNA, complete cds.
GenBankKJ7277474e-95KJ727747.1 Zea mays clone pUT5688 bHLH transcription factor (bHLH148) mRNA, partial cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_022684500.12e-64transcription factor PIF1
SwissprotQ10CH51e-31PIL13_ORYSJ; Transcription factor PHYTOCHROME INTERACTING FACTOR-LIKE 13
TrEMBLK3YC154e-63K3YC15_SETIT; Uncharacterized protein
STRINGPavir.J18207.1.p1e-65(Panicum virgatum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP95623043
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G09530.29e-29phytochrome interacting factor 3
Publications ? help Back to Top
  1. 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]
  2. Nakamura Y,Kato T,Yamashino T,Murakami M,Mizuno T
    Characterization of a set of phytochrome-interacting factor-like bHLH proteins in Oryza sativa.
    Biosci. Biotechnol. Biochem., 2007. 71(5): p. 1183-91
    [PMID:17485859]
  3. Zhao XL,Shi ZY,Peng LT,Shen GZ,Zhang JL
    An atypical HLH protein OsLF in rice regulates flowering time and interacts with OsPIL13 and OsPIL15.
    N Biotechnol, 2011. 28(6): p. 788-97
    [PMID:21549224]
  4. Todaka D, et al.
    Rice phytochrome-interacting factor-like protein OsPIL1 functions as a key regulator of internode elongation and induces a morphological response to drought stress.
    Proc. Natl. Acad. Sci. U.S.A., 2012. 109(39): p. 15947-52
    [PMID:22984180]