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 RrC1130_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: 93aa    MW: 10622.9 Da    PI: 9.3968
Description bHLH family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC1130_p1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1HLH309.4e-1021611554
                HHHHHHHHHHCTSCCC....TTS-STCHHHHHHHHHHHHHH CS
         HLH 15 riNsafeeLrellPkas.kapskKlsKaeiLekAveYIksL 54
                +iN+ + +L++llP++  + +s K+s a +L+++++YI++L
  RrC1130_p1 21 QINDLIIKLQQLLPELRdSRRSDKVSAARVLQETCNYIRNL 61
                8**************55599*******************99 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5088811.903661IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
SMARTSM003530.00281667IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
Gene3DG3DSA:4.10.280.101.4E-92080IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
CDDcd000834.42E-52065No hitNo description
SuperFamilySSF474591.31E-102080IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
PfamPF000104.4E-72161IPR011598Myc-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: 93 aa     Download sequence    Send to blast
MSGRRSRSRQ SSGTSRISEE QINDLIIKLQ QLLPELRDSR RSDKVSAARV LQETCNYIRN  60
LHREVDDLSE RLSELLANTD TAQAALIRSL LTQ
Functional Description ? help Back to Top
Source Description
UniProtAtypical and probable non DNA-binding bHLH transcription factor required for MONOPTEROS-dependent root initiation in embryo. Promotes the correct definition of the hypophysis cell division plane. Transcriptionally controlled by MONOPTEROS. Moves from its site of synthesis in pro-embryos cells into the hypophysis. Regulates brassinosteroid (BR) signaling by sequestering negative BR signaling components. May function as positive regulator of gibberellin signaling. May play a role in the regulation of light signaling and possibly auxin signaling. {ECO:0000269|PubMed:16527868, ECO:0000269|PubMed:20023194, ECO:0000269|PubMed:20220754, ECO:0000269|PubMed:22339648}.
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
GenBankAK2273951e-118AK227395.1 Arabidopsis thaliana mRNA for putative DNA-binding protein, complete cds, clone: RAFL14-05-N07.
GenBankAY0882861e-118AY088286.1 Arabidopsis thaliana clone 519 mRNA, complete sequence.
GenBankBT0030461e-118BT003046.1 Arabidopsis thaliana At1g74500 gene, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018444727.18e-59PREDICTED: transcription factor PRE3
RefseqXP_018464339.18e-59PREDICTED: transcription factor PRE3
SwissprotQ9CA643e-46PRE3_ARATH; Transcription factor PRE3
TrEMBLA0A087HID98e-57A0A087HID9_ARAAL; Uncharacterized protein
STRINGA0A087HID91e-57(Arabis alpina)
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
AT1G74500.16e-47activation-tagged BRI1(brassinosteroid-insensitive 1)-suppressor 1
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. Ezer D, et al.
    The G-Box Transcriptional Regulatory Code in Arabidopsis.
    Plant Physiol., 2017. 175(2): p. 628-640
    [PMID:28864470]
  3. Lu KJ,De Rybel B,van Mourik H,Weijers D
    Regulation of intercellular TARGET OF MONOPTEROS 7 protein transport in the Arabidopsis root.
    Development, 2018.
    [PMID:29358212]
  4. Baesso B, et al.
    Transcription factors PRE3 and WOX11 are involved in the formation of new lateral roots from secondary growth taproot in A. thaliana.
    Plant Biol (Stuttg), 2018. 20(3): p. 426-432
    [PMID:29450949]