PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Pavir.9NG081800.3.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: 412aa    MW: 43989.9 Da    PI: 6.2594
Description bHLH family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.9NG081800.3.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1HLH53.93.3e-17228274455
                          HHHHHHHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS
                  HLH   4 ahnerErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55 
                           hn  ErrRRdriN+++  L+el+P++      K +Ka+iL +++eY+ksLq
  Pavir.9NG081800.3.p 228 VHNLSERRRRDRINEKMRALQELIPHC-----NKTDKASILDETIEYLKSLQ 274
                          6*************************8.....6******************9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
CDDcd000835.88E-18220278No hitNo description
SuperFamilySSF474596.41E-21222288IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
PROSITE profilePS5088818.482224273IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
PfamPF000101.9E-14228274IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
Gene3DG3DSA:4.10.280.101.0E-21228283IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
SMARTSM003531.3E-17230279IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009585Biological Processred, far-red light phototransduction
GO:0009693Biological Processethylene biosynthetic process
GO:0010244Biological Processresponse to low fluence blue light stimulus by blue low-fluence system
GO:0010600Biological Processregulation of auxin biosynthetic process
GO:0010928Biological Processregulation of auxin mediated signaling pathway
GO:0005634Cellular Componentnucleus
GO:0046983Molecular Functionprotein dimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 412 aa     Download sequence    Send to blast
MDGNARPAAN QKKPIVTDDD LVELLWHNGS VVAQPQAHQR PAPSDRPGSS GLTGEETAAW  60
FPDTLDDALE KDLYTQLWYS SIIDAAPHHG DTLPGPSSPP PPPELAHPVT PPVGSSGVES  120
SWAGDICSTF YGSNQVPGMP AGVNRGKDAS FQSEVPHGAG AGTSSSGGSG SNYGGSGLPS  180
DSGHVQKGKG ICRDDSDSRS EDAECEATEE AKSSRRCGTK RRTRAAEVHN LSERRRRDRI  240
NEKMRALQEL IPHCNKTDKA SILDETIEYL KSLQMQVQIM WMTSGMAPMM FPGAHQFMSP  300
MALGMNSACV TQMSYMNLPL PNHIPLNSSP TMNPINSPSI ANQMQNVHLR EASNHFLHQG  360
GGQISVPQVP GTHVYGPEIP QAEQHNRILE VPASTVAATS RAGQLHTYGG A*
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1219236KRRTRAAEVHNLSERRRR
2232237ERRRRD
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pvr.150270.0leaf
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}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00082ChIP-seqTransfer from AT3G59060Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.9NG081800.3.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-142PIL13_ORYSJ; Transcription factor PHYTOCHROME INTERACTING FACTOR-LIKE 13
TrEMBLA0A3L6TIV10.0A0A3L6TIV1_PANMI; Transcription factor PIF4-like isoform X1
STRINGPavir.Ia00490.1.p0.0(Panicum virgatum)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G59060.43e-36phytochrome 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]