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 RrC5475_p1
Organism
Raphanus raphanistrum
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Raphanus
Family bHLH
Protein Properties Length: 378aa    MW: 42342 Da    PI: 7.8804
Description bHLH family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC5475_p1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1HLH39.31.2e-12230276455
                 HHHHHHHHHHHHHHHHHHHHHCTSCC.C...TTS-STCHHHHHHHHHHHHHHH CS
         HLH   4 ahnerErrRRdriNsafeeLrellPk.askapskKlsKaeiLekAveYIksLq 55 
                 +h e+Er+RR+++N++f  Lr ++P+ +      K++Ka+ L  A+ YI ++q
  RrC5475_p1 230 NHVEAERQRREKLNQRFYALRAVVPNiS------KMDKASLLADAITYITDMQ 276
                 799***********************66......***************9998 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF142151.9E-2212138IPR025610Transcription factor MYC/MYB N-terminal
PROSITE profilePS5088816.234226275IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
SuperFamilySSF474591.06E-17226292IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
CDDcd000831.73E-13229280No hitNo description
Gene3DG3DSA:4.10.280.104.3E-17230292IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
PfamPF000103.1E-10230276IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
SMARTSM003531.6E-14232281IPR011598Myc-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: 378 aa     Download sequence    Send to blast
RLVKGPPGDD QDETKRRVLG KLRSSFIGSD EGEEDHHRLV KSGPLTDFDM FYLASLYFSF  60
RCDSNKYGPA GTYVSGKPLW AADLPSCLSY YRVRSFLARS AGFKTVLSVP VNCGVVELGS  120
LKLIPEDKSV IEMVKSVFGG SDFVQAKEAP KIFGRQLSLG ASKPRSMSIN FSPKMEDESG  180
FSLEPYEVVQ ASQVYGYEQG KEEAALYLTD EQKPRKRGRK PANGREEALN HVEAERQRRE  240
KLNQRFYALR AVVPNISKMD KASLLADAIT YITDMQKKIR VYETEKQVMK RRESNQITPA  300
EVDYQQREDD AAVVRVSCAL ENHPVSKVVQ VFKENEVTPH DANVAVTEEG VVHTFTLRPQ  360
GGCTAEELKD KLLASLAQ
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5gnj_A3e-26224307281Transcription factor MYC2
5gnj_B3e-26224307281Transcription factor MYC2
5gnj_E3e-26224307281Transcription factor MYC2
5gnj_F3e-26224307281Transcription factor MYC2
5gnj_G3e-26224307281Transcription factor MYC2
5gnj_I3e-26224307281Transcription factor MYC2
5gnj_M3e-26224307281Transcription factor MYC2
5gnj_N3e-26224307281Transcription factor MYC2
Search in ModeBase
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By UV treatment. {ECO:0000269|PubMed:12679534}.
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_018471105.10.0PREDICTED: transcription factor bHLH3
SwissprotO234870.0BH003_ARATH; Transcription factor bHLH3
TrEMBLA0A3P5ZGX90.0A0A3P5ZGX9_BRACM; Uncharacterized protein
STRINGXP_006414350.10.0(Eutrema salsugineum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM66112741
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G16430.10.0bHLH family protein
Publications ? help Back to Top
  1. Skinner MK,Rawls A,Wilson-Rawls J,Roalson EH
    Basic helix-loop-helix transcription factor gene family phylogenetics and nomenclature.
    Differentiation, 2010. 80(1): p. 1-8
    [PMID:20219281]
  2. Sasaki-Sekimoto Y,Saito H,Masuda S,Shirasu K,Ohta H
    Comprehensive analysis of protein interactions between JAZ proteins and bHLH transcription factors that negatively regulate jasmonate signaling.
    Plant Signal Behav, 2014. 9(1): p. e27639
    [PMID:24394987]
  3. Fonseca S, et al.
    bHLH003, bHLH013 and bHLH017 are new targets of JAZ repressors negatively regulating JA responses.
    PLoS ONE, 2014. 9(1): p. e86182
    [PMID:24465948]
  4. Ezer D, et al.
    The G-Box Transcriptional Regulatory Code in Arabidopsis.
    Plant Physiol., 2017. 175(2): p. 628-640
    [PMID:28864470]