PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID RrC6121_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: 467aa    MW: 51607.2 Da    PI: 8.2186
Description bHLH family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC6121_p1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1HLH55.88.1e-18221270255
                 HHHHHHHHHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS
         HLH   2 rrahnerErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55 
                 r +h++ E+rRR++iN++f+ Lr+l+P++    ++K +Ka+ L +++eYI+ Lq
  RrC6121_p1 221 RSKHSATEQRRRSKINDRFQMLRQLIPNS----DQKRDKASFLLEVIEYIQFLQ 270
                 889*************************9....9*******************9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:4.10.280.101.4E-23218290IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
PROSITE profilePS5088817.225219269IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
SuperFamilySSF474595.5E-19220289IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
PfamPF000102.7E-15221270IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
CDDcd000831.08E-14221272No hitNo description
SMARTSM003534.4E-13225275IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006351Biological Processtranscription, DNA-templated
GO:0009742Biological Processbrassinosteroid mediated signaling pathway
GO:1902448Biological Processpositive regulation of shade avoidance
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0046983Molecular Functionprotein dimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 467 aa     Download sequence    Send to blast
MEAGSHLKTH DFLQPLECVG GSKEETSRAD TTRIASEKPP PLQHVLPGGI GTYTISSIPY  60
FSNHQRVPKP ELSPPMMFTA SGGVERNAVD AAAVASGFTL WDESGSGNKG QTRKENSASG  120
ERAGVATTMG QWPVVEQRSQ SLTNNNNPLS GFSSRSSSQG SGLKSQSFMD MIRSAKGTSP  180
DDDLDDDEDF IMKKESSSTS QNHRVDLRVK ASNDPKLNTP RSKHSATEQR RRSKINDRFQ  240
MLRQLIPNSD QKRDKASFLL EVIEYIQFLQ EKTSKYETPY QGWNQEPAKL LNWQRNNQQL  300
VPEGTVSFAP KLEQEKNNIP VLATAETLNR ERFPLSVQSS SLFSPVIAGN PVTELQARVA  360
SSSETAEPNP SSRSHTQPLK EEGDDEEGRE GNNISVSSVY SQGLVKRLRE ALEKSGVDLT  420
KTSISVEIEL AKQLSSLKNH EVCDPVSRTG NDKQTRKPKR LKTYNTS
Functional Description ? help Back to Top
Source Description
UniProtPositive brassinosteroid-signaling protein. Transcription factor that bind specifically to the DNA sequence 5'-CANNTG-3'(E box). Can bind individually to the promoter as a homodimer or synergistically as a heterodimer with BZR2/BES1. Does not itself activate transcription but enhances BZR2/BES1-mediated target gene activation. {ECO:0000269|PubMed:15680330}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00498DAPTransfer from AT5G08130Download
Motif logo
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Repressed by cold treatment. {ECO:0000269|PubMed:12679534}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK3533131e-166AK353313.1 Thellungiella halophila mRNA, complete cds, clone: RTFL01-34-P07.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018476798.10.0PREDICTED: transcription factor BIM1-like isoform X1
SwissprotQ9LEZ30.0BIM1_ARATH; Transcription factor BIM1
TrEMBLM4CP310.0M4CP31_BRARP; Uncharacterized protein
STRINGBra005969.1-P0.0(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM69672744
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G08130.50.0bHLH family protein
Publications ? help Back to Top
  1. Liang T, et al.
    UVR8 Interacts with BES1 and BIM1 to Regulate Transcription and Photomorphogenesis in Arabidopsis.
    Dev. Cell, 2018. 44(4): p. 512-523.e5
    [PMID:29398622]