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 RrC24973_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: 115aa    MW: 12031.9 Da    PI: 11.5093
Description bHLH family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC24973_p1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1HLH28.23.5e-091354854
                 HHHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHH CS
          HLH  8 rErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksL 54
                 + r RR+ri +++  L++l+P       +K++ a++L +A++Y+k L
  RrC24973_p1 13 AARHRRERISERIRILQRLVPGG-----TKMDTASMLDEAIHYVKFL 54
                 5699*****************87.....8****************98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5088815.434554IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
Gene3DG3DSA:4.10.280.106.6E-15664IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
SuperFamilySSF474591.7E-15965IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
SMARTSM003538.3E-141160IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
PfamPF000101.7E-61454IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
CDDcd000831.25E-52859No hitNo description
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: 115 aa     Download sequence    Send to blast
RNVRISKDPQ SVAARHRRER ISERIRILQR LVPGGTKMDT ASMLDEAIHY VKFLKKQVQS  60
LEEQAVVNSG GGGRVLVGGG GVTGAVSGGG GGGVVMKGCG AIGTHQMVGN AQILR
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
17179GGRVLVGGG
Functional Description ? help Back to Top
Source Description
UniProtRequired for the female reproductive tract development and fertility. {ECO:0000269|PubMed:17855426}.
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Negatively regulated by ARF3/ETT in the abaxial gynoecium. {ECO:0000269|PubMed:17855426}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAB0207424e-86AB020742.1 Arabidopsis thaliana genomic DNA, chromosome 5, TAC clone:K21H1.
GenBankAF4886184e-86AF488618.1 Arabidopsis thaliana clone bHLH088 putative bHLH transcription factor mRNA, complete cds.
GenBankAK2289274e-86AK228927.1 Arabidopsis thaliana mRNA for putative bHLH transcription factor, complete cds, clone: RAFL16-24-D23.
GenBankCP0026884e-86CP002688.1 Arabidopsis thaliana chromosome 5 sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018463172.14e-76PREDICTED: transcription factor HEC1-like
SwissprotQ9SND47e-38HEC2_ARATH; Transcription factor HEC2
TrEMBLA0A3P5Y4Y15e-74A0A3P5Y4Y1_BRACM; Uncharacterized protein
STRINGBra036801.1-P3e-74(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM15592791
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G67060.12e-27bHLH 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. Zhu L, et al.
    A Negative Feedback Loop between PHYTOCHROME INTERACTING FACTORs and HECATE Proteins Fine-Tunes Photomorphogenesis in Arabidopsis.
    Plant Cell, 2016. 28(4): p. 855-74
    [PMID:27073231]