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 RrC108_p4
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: 78aa    MW: 8810.03 Da    PI: 5.0201
Description bHLH family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC108_p4genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1HLH23.31.2e-075471454
               HHHHHHHHHHHCTSCCC.....TTS-STCHHHHHHHHHHHHHH CS
        HLH 14 driNsafeeLrellPkas..kapskKlsKaeiLekAveYIksL 54
               d+iN+   +L +llP++   + +s+K+s + +L++++ YI++L
  RrC108_p4  5 DQINDLVLQLHRLLPELGnnNRRSGKVSASKVLQETCTYIRNL 47
               79**************666899*******************98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS508889.324147IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
Gene3DG3DSA:4.10.280.104.5E-8569IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
SuperFamilySSF474591.57E-8565IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
PfamPF000106.2E-5547IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009640Biological Processphotomorphogenesis
GO:0048510Biological Processregulation of timing of transition from vegetative to reproductive phase
GO:0046983Molecular Functionprotein dimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 78 aa     Download sequence    Send to blast
MISEDQINDL VLQLHRLLPE LGNNNRRSGK VSASKVLQET CTYIRNLNKE VDDLSERLSQ  60
LLESTDSAQA ALIRSLLM
Functional Description ? help Back to Top
Source Description
UniProtAtypical and probable non DNA-binding bHLH transcription factor that integrates multiple signaling pathways to regulate cell elongation and plant development. Regulates light responses by binding and inhibiting the activity of the bHLH transcription factor HFR1, a critical regulator of light signaling and shade avoidance. May have a regulatory role in various aspects of gibberellin-dependent growth and development. {ECO:0000269|PubMed:16527868, ECO:0000269|PubMed:20305124}.
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Not induced by exogenous gibberellin. {ECO:0000269|PubMed:16527868}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAL0497462e-56AL049746.1 Arabidopsis thaliana DNA chromosome 3, BAC clone T23J7.
GenBankCP0026862e-56CP002686.1 Arabidopsis thaliana chromosome 3, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_009149879.13e-49PREDICTED: transcription factor PRE4
RefseqXP_018438308.13e-49PREDICTED: transcription factor PRE4
SwissprotF4JCN94e-43PRE4_ARATH; Transcription factor PRE4
TrEMBLA0A078HHS27e-48A0A078HHS2_BRANA; BnaA06g17190D protein
TrEMBLA0A397Z5I07e-48A0A397Z5I0_BRACM; Uncharacterized protein
TrEMBLM4DNN07e-48M4DNN0_BRARP; Uncharacterized protein
STRINGBra018117.1-P1e-48(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM25928225
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G47710.12e-45BANQUO 3
Publications ? help Back to Top
  1. Ezer D, et al.
    The G-Box Transcriptional Regulatory Code in Arabidopsis.
    Plant Physiol., 2017. 175(2): p. 628-640
    [PMID:28864470]