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.7NG279500.1.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: 566aa    MW: 61773.9 Da    PI: 5.0763
Description bHLH family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.7NG279500.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1HLH43.65.3e-14375422355
                          HHHHHHHHHHHHHHHHHHHHHHCTSCC.C...TTS-STCHHHHHHHHHHHHHHH CS
                  HLH   3 rahnerErrRRdriNsafeeLrellPk.askapskKlsKaeiLekAveYIksLq 55 
                          ++h + Er+RR+++N+ f  L++l+P+        K++Ka+iL k++ Y+k+Lq
  Pavir.7NG279500.1.p 375 KNHVMSERKRREKLNEMFLVLKSLVPSiH------KVNKASILAKTIAYLKELQ 422
                          5899***********************66......******************9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF142152.5E-5218201IPR025610Transcription factor MYC/MYB N-terminal
PROSITE profilePS5088815.135372421IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
CDDcd000836.67E-16375426No hitNo description
SuperFamilySSF474594.71E-18375437IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
Gene3DG3DSA:4.10.280.101.5E-17376433IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
PfamPF000102.5E-11376422IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
SMARTSM003538.9E-16378427IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0010026Biological Processtrichome differentiation
GO:0010214Biological Processseed coat development
GO:2000029Biological Processregulation of proanthocyanidin biosynthetic process
GO:0000976Molecular Functiontranscription regulatory region sequence-specific DNA binding
GO:0046983Molecular Functionprotein dimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 566 aa     Download sequence    Send to blast
MALPASLVRQ DVPPGRQLRN QLAAAARTIN WSYALFWSIS STQPGILTWT DGFYNGEVKT  60
RKIANSAEQT AEQLVMQRSE QLRELYEALL SGECDRRAAR PVASLSPEDL GDTEWYYVVC  120
MTYAFRPGQG LPGRSFASNE HIWLCYAQHA DSKAFPRALL AKGASIQTIV CIPLMSGVLE  180
LGTTDPVVED PDLVSRATAS FWDMQFPACS EEPSSSPSAN ETGKAADIIV LEDLDHNAME  240
IAGGQELDEA ESLSNATLEH ITKEIDEFYS LCEEMDVQPL EDSWIMDGSF EVPSSPQPAA  300
GASTDDAAIS STLFGGSRAT SFAAWIGSAS DSGEVAVPVI EEPQKLLKKV VAGGAWANNG  360
GGGTTRTTQE GGIIKNHVMS ERKRREKLNE MFLVLKSLVP SIHKVNKASI LAKTIAYLKE  420
LQRRVHELES SREPISRPSE TRRLTKRHDD GIARKKVSAG AKRKGSELGG DMERERPWDL  480
SKDGTSNVTV TVSDKDVLLE VQCRWEELLM TRVFDAIKSL HLDVLSVQAS APDGFMGLKI  540
RAQFASSAAV VPWMISDALR KAIGK*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4rqw_A4e-213020123192Transcription factor MYC3
4rqw_B4e-213020123192Transcription factor MYC3
4rs9_A4e-213020123192Transcription factor MYC3
4yz6_A4e-213020123192Transcription factor MYC3
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1380385ERKRRE
2381386RKRREK
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.7NG279500.1.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_025823475.10.0anthocyanin regulatory R-S protein-like isoform X2
SwissprotP135260.0ARLC_MAIZE; Anthocyanin regulatory Lc protein
TrEMBLA0A2S3I9980.0A0A2S3I998_9POAL; Uncharacterized protein
STRINGPavir.Gb01093.1.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
AT4G09820.18e-74bHLH 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]