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.6NG235200.1.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: 390aa    MW: 41941.9 Da    PI: 6.107
Description bHLH family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.6NG235200.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1HLH543.1e-17231277455
                          HHHHHHHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS
                  HLH   4 ahnerErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55 
                           hn  ErrRRdriN+++  L+el+P++      K +Ka+iL +++eY+ksLq
  Pavir.6NG235200.1.p 231 VHNLSERRRRDRINEKMRALQELIPHC-----NKTDKASILDETIEYLKSLQ 277
                          6*************************8.....6******************9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
CDDcd000834.66E-18223281No hitNo description
SuperFamilySSF474593.4E-20225286IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
PROSITE profilePS5088818.482227276IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
Gene3DG3DSA:4.10.280.104.1E-21231281IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
PfamPF000101.7E-14231277IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
SMARTSM003531.3E-17233282IPR011598Myc-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: 390 aa     Download sequence    Send to blast
MDGNARPAAN QKKPIVPDDD LVELLWHNGS VVAHPQAHQR PEPSDRPGSS GLTGEETAAW  60
FPDTLDDAFE KDLYTQLWYS SIVDAAPHHG DTLPGPSSPP PPPPPPELAH PVTPPVGSGG  120
VESSWAGDIC STFCGSNQVP RMPAGVNRGE DASLQSEVPH GAGAGTSSSG GSGSNYGGSG  180
LPSDSGHVQK GKGMCRDDSD SRSEDAECEE TEETKSLRRC GTKRRTRAAE VHNLSERRRR  240
DRINEKMRAL QELIPHCNKT DKASILDETI EYLKSLQMQV QIIGMTSGMA PMMFPGAHQF  300
MSPMALGMNS ACITAAQGLS QMPRLPYMNL PLPNHIPLNS SPAMNPINSP SIANEMQNVH  360
LMEASNHFLH PRWRANIGTS GTRNPCLWT*
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1222239KRRTRAAEVHNLSERRRR
2235240ERRRRD
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pvr.420240.0leaf
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.6NG235200.1.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 -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025793215.10.0transcription factor PHYTOCHROME INTERACTING FACTOR-LIKE 13-like
RefseqXP_025793216.10.0transcription factor PHYTOCHROME INTERACTING FACTOR-LIKE 13-like
RefseqXP_025793217.10.0transcription factor PHYTOCHROME INTERACTING FACTOR-LIKE 13-like
SwissprotQ10CH51e-139PIL13_ORYSJ; Transcription factor PHYTOCHROME INTERACTING FACTOR-LIKE 13
TrEMBLA0A3L6TIV10.0A0A3L6TIV1_PANMI; Transcription factor PIF4-like isoform X1
STRINGPavir.J12143.1.p0.0(Panicum virgatum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP31743482
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G59060.14e-32phytochrome interacting factor 3-like 6
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]