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.3NG202900.1.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: 540aa    MW: 58947.2 Da    PI: 4.7486
Description bHLH family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.3NG202900.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1HLH39.78.6e-13336382455
                          HHHHHHHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS
                  HLH   4 ahnerErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55 
                          +h + ErrRR+++N+ f  L++l+P+      +K++Ka+iL +++ ++k+L+
  Pavir.3NG202900.1.p 336 SHVMSERRRREKLNEMFIVLKSLIPST-----RKVDKASILAETIAHLKELE 382
                          899***********************8.....8****************995 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF142151.0E-4420181IPR025610Transcription factor MYC/MYB N-terminal
PROSITE profilePS5088815.599332381IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
CDDcd000831.08E-14335386No hitNo description
SuperFamilySSF474594.19E-17335398IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
PfamPF000102.2E-10336382IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
Gene3DG3DSA:4.10.280.102.6E-16336393IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
SMARTSM003531.9E-15338387IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009957Biological Processepidermal cell fate specification
GO:0005634Cellular Componentnucleus
GO:0046983Molecular Functionprotein dimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 540 aa     Download sequence    Send to blast
MALSASPVQE EPQPGNEQFR NHLAAAVRSI NWSYAIFWSV SSTGPAGVLT WKDGFYNGEV  60
KTRKVTSSTS EMTADQLALQ RSQQLRELYE PPRPIAALSP EDLGDTEWFY VVCMTYAFRP  120
GQGLPGKSLA RNEHVWLRNA HLADTKTFPR ALLAKTVVCI PLMDGVLELG TTDSVLENPD  180
LEPNSCPSTD DDTGEATDII VFEDVDHNAS SMEPMMISDA NLEEVSCLEI DELYNLCEGL  240
DVQALEDDWI GTDDEAPPSP EPALATDDGD HALISTNGSR FSSSFKAWTR PESDRRAAKM  300
LKKVVSGGAW ASGDGGDGSR ARGAATTQEE SGVVKSHVMS ERRRREKLNE MFIVLKSLIP  360
STRKVDKASI LAETIAHLKE LERRVQELES SKELISIPRP AAERRHDDEV VVVGARKAAT  420
PGRGAKRKKK GSDSELDAAG DGQMAEQHWV RPNDGRSNVI SIAVGDKEVL LDVQCRWEER  480
LMARVFDAVK SLRLDIVSVQ SSTLDGLMGL KVRAQFASSA AVAPGMITEA LQEAISSRT*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5t0f_A4e-20111811184Transcription factor MYC3
5t0q_A4e-20111811184Transcription factor MYC3
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1340345ERRRRE
2341346RRRREK
Functional Description ? help Back to Top
Source Description
UniProtPutative transcriptional activator. Control tissue-specific synthesis of anthocyanin pigments in various parts of the maize plant.
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.3NG202900.1.p
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_025808676.10.0anthocyanin regulatory R-S protein-like
SwissprotP135261e-169ARLC_MAIZE; Anthocyanin regulatory Lc protein
TrEMBLA0A2T7EH790.0A0A2T7EH79_9POAL; Uncharacterized protein
STRINGPavir.Cb00833.1.p0.0(Panicum virgatum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP93233109
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G63650.34e-89bHLH family protein
Publications ? help Back to Top
  1. Pattanaik S,Xie CH,Yuan L
    The interaction domains of the plant Myc-like bHLH transcription factors can regulate the transactivation strength.
    Planta, 2008. 227(3): p. 707-15
    [PMID:18075757]
  2. Huang ZA, et al.
    The upregulation of NtAN2 expression at low temperature is required for anthocyanin accumulation in juvenile leaves of Lc-transgenic tobacco (Nicotiana tabacum L.).
    J Genet Genomics, 2012. 39(3): p. 149-56
    [PMID:22464474]
  3. Ludwig SR,Habera LF,Dellaporta SL,Wessler SR
    Lc, a member of the maize R gene family responsible for tissue-specific anthocyanin production, encodes a protein similar to transcriptional activators and contains the myc-homology region.
    Proc. Natl. Acad. Sci. U.S.A., 1989. 86(18): p. 7092-6
    [PMID:2674946]
  4. Li P, et al.
    Combined bulked segregant sequencing and traditional linkage analysis for identification of candidate gene for purple leaf sheath in maize.
    PLoS ONE, 2018. 13(1): p. e0190670
    [PMID:29304111]