PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Previous version: v3.0 v4.0
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID AT1G74500.1
Common NameATBS1, bHLH135, BS1, EN67, F1M20.18, PRE3, TMO7
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis
Family bHLH
Protein Properties Length: 93aa    MW: 10580.9 Da    PI: 9.3967
Description activation-tagged BRI1(brassinosteroid-insensitive 1)-suppressor 1
Gene Model
Gene Model ID Type Source Coding Sequence
AT1G74500.1genomeTAIRView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
          HLH 14 driNsafeeLrellPkas.kapskKlsKaeiLekAveYIksL 54
                 d+iN+ + +L++llP++  + +s K+s a +L+ +++YI++L
                 79**************55599*******************99 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5088811.712661IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
SuperFamilySSF474591.96E-102079IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
Gene3DG3DSA:, basic helix-loop-helix (bHLH) domain
CDDcd000834.74E-52065No hitNo description
PfamPF000104.6E-72061IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0009740Biological Processgibberellic acid mediated signaling pathway
GO:0009742Biological Processbrassinosteroid mediated signaling pathway
GO:0010086Biological Processembryonic root morphogenesis
GO:0040008Biological Processregulation of growth
GO:0005634Cellular Componentnucleus
GO:0005737Cellular Componentcytoplasm
GO:0003677Molecular FunctionDNA binding
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0005515Molecular Functionprotein binding
GO:0046983Molecular Functionprotein dimerization activity
Plant Ontology ? help Back to Top
PO Term PO Category PO Description
PO:0000045anatomyembryo root
PO:0020109anatomyembryo hypophysis
PO:0001185developmental stageplant embryo globular stage
Sequence ? help Back to Top
Protein Sequence    Length: 93 aa     Download sequence    Send to blast
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Expression -- Microarray ? help Back to Top
Source ID E-value
Expression AtlasAT1G74500-
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: At the globular stage, expressed in cells adjacent to the hypophysis and at later embryonic stages, restricted to the future root stem cells. {ECO:0000269|PubMed:20220754}.
UniprotTISSUE SPECIFICITY: Expressed in root and shoot meristems, and young siliques. Low levels detected in all aerial tissues. {ECO:0000269|PubMed:16527868, ECO:0000269|PubMed:20023194, ECO:0000269|PubMed:22339648}.
Functional Description ? help Back to Top
Source Description
TAIREncodes a basic helixloophelix transcription factor that acts downstream of MP in root initiation. TMO7 protein moves to the hypophysis and to vascular cells, contributing to MP-dependent root formation. Promotes the correct definition of the hypophysis cell division plane.
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}.
Function -- GeneRIF ? help Back to Top
  1. Plants use atypical Basic helix-loop-helix (bHLH) proteins to regulate BR signaling. [ATBS1]
    [PMID: 20023194]
  2. TARGET OF MP, TMO5 and TMO7 encode basic helix-loop-helix (bHLH) transcription factors that are expressed in the hypophysis-adjacent embryo cells, and are required and partially sufficient for MONOPTEROS-dependent root initiation. [TMO7]
    [PMID: 20220754]
  3. TMO7 is involved in the regulation of light signaling.
    [PMID: 22339648]
  4. In the post-embryonic root, TMO7 and its close relatives are transported into the root cap through plasmodesmata in a sequence-dependent manner. Nuclear residence is crucial for TMO7 transport, and we postulate that modification, potentially phosphorylation, labels TMO7 for transport.
    [PMID: 29358212]
  5. involved in the formation of new lateral roots from secondary growth taproot
    [PMID: 29450949]
Cis-element ? help Back to Top
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
Interaction ? help Back to Top
Source Intact With
IntActSearch Q9CA64
Phenotype -- Mutation ? help Back to Top
Source ID
T-DNA ExpressAT1G74500
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK2273951e-156AK227395.1 Arabidopsis thaliana mRNA for putative DNA-binding protein, complete cds, clone: RAFL14-05-N07.
GenBankAY0882861e-156AY088286.1 Arabidopsis thaliana clone 519 mRNA, complete sequence.
GenBankBT0030461e-156BT003046.1 Arabidopsis thaliana At1g74500 gene, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqNP_177590.12e-58activation-tagged BRI1(brassinosteroid-insensitive 1)-suppressor 1
SwissprotQ9CA641e-59PRE3_ARATH; Transcription factor PRE3
STRINGAT1G74500.17e-58(Arabidopsis thaliana)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
Representative plantOGRP18771240
Publications ? help Back to Top
  1. Heim MA, et al.
    The basic helix-loop-helix transcription factor family in plants: a genome-wide study of protein structure and functional diversity.
    Mol. Biol. Evol., 2003. 20(5): p. 735-47
  2. Toledo-Ortiz G,Huq E,Quail PH
    The Arabidopsis basic/helix-loop-helix transcription factor family.
    Plant Cell, 2003. 15(8): p. 1749-70
  3. Yamada K, et al.
    Empirical analysis of transcriptional activity in the Arabidopsis genome.
    Science, 2003. 302(5646): p. 842-6
  4. Bailey PC, et al.
    Update on the basic helix-loop-helix transcription factor gene family in Arabidopsis thaliana.
    Plant Cell, 2003. 15(11): p. 2497-502
  5. Hoth S, et al.
    Monitoring genome-wide changes in gene expression in response to endogenous cytokinin reveals targets in Arabidopsis thaliana.
    FEBS Lett., 2003. 554(3): p. 373-80
  6. Czechowski T,Bari RP,Stitt M,Scheible WR,Udvardi MK
    Real-time RT-PCR profiling of over 1400 Arabidopsis transcription factors: unprecedented sensitivity reveals novel root- and shoot-specific genes.
    Plant J., 2004. 38(2): p. 366-79
  7. Wang XJ,Cao XL,Hong Y
    Isolation and characterization of flower-specific transcripts in Acacia mangium.
    Tree Physiol., 2005. 25(2): p. 167-78
  8. Branco-Price C,Kawaguchi R,Ferreira RB,Bailey-Serres J
    Genome-wide analysis of transcript abundance and translation in Arabidopsis seedlings subjected to oxygen deprivation.
    Ann. Bot., 2005. 96(4): p. 647-60
  9. Lee S, et al.
    Overexpression of PRE1 and its homologous genes activates Gibberellin-dependent responses in Arabidopsis thaliana.
    Plant Cell Physiol., 2006. 47(5): p. 591-600
  10. Hyun Y,Lee I
    KIDARI, encoding a non-DNA Binding bHLH protein, represses light signal transduction in Arabidopsis thaliana.
    Plant Mol. Biol., 2006. 61(1-2): p. 283-96
  11. Cao D,Cheng H,Wu W,Soo HM,Peng J
    Gibberellin mobilizes distinct DELLA-dependent transcriptomes to regulate seed germination and floral development in Arabidopsis.
    Plant Physiol., 2006. 142(2): p. 509-25
  12. Zhang LY, et al.
    Antagonistic HLH/bHLH transcription factors mediate brassinosteroid regulation of cell elongation and plant development in rice and Arabidopsis.
    Plant Cell, 2009. 21(12): p. 3767-80
  13. Wang H, et al.
    Regulation of Arabidopsis brassinosteroid signaling by atypical basic helix-loop-helix proteins.
    Plant Cell, 2009. 21(12): p. 3781-91
  14. 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
  15. Schlereth A, et al.
    MONOPTEROS controls embryonic root initiation by regulating a mobile transcription factor.
    Nature, 2010. 464(7290): p. 913-6
  16. De Rybel B, et al.
    A versatile set of ligation-independent cloning vectors for functional studies in plants.
    Plant Physiol., 2011. 156(3): p. 1292-9
  17. Arabidopsis Interactome Mapping Consortium
    Evidence for network evolution in an Arabidopsis interactome map.
    Science, 2011. 333(6042): p. 601-7
  18. Koizumi K,Wu S,MacRae-Crerar A,Gallagher KL
    An essential protein that interacts with endosomes and promotes movement of the SHORT-ROOT transcription factor.
    Curr. Biol., 2011. 21(18): p. 1559-64
  19. Castelain M,Le Hir R,Bellini C
    The non-DNA-binding bHLH transcription factor PRE3/bHLH135/ATBS1/TMO7 is involved in the regulation of light signaling pathway in Arabidopsis.
    Physiol Plant, 2012. 145(3): p. 450-60
  20. Saiga S, et al.
    Control of embryonic meristem initiation in Arabidopsis by PHD-finger protein complexes.
    Development, 2012. 139(8): p. 1391-8
  21. Meinke DW
    A survey of dominant mutations in Arabidopsis thaliana.
    Trends Plant Sci., 2013. 18(2): p. 84-91
  22. Ikeda M,Fujiwara S,Mitsuda N,Ohme-Takagi M
    A triantagonistic basic helix-loop-helix system regulates cell elongation in Arabidopsis.
    Plant Cell, 2012. 24(11): p. 4483-97
  23. Ikeda M,Mitsuda N,Ohme-Takagi M
    ATBS1 INTERACTING FACTORs negatively regulate Arabidopsis cell elongation in the triantagonistic bHLH system.
    Plant Signal Behav, 2013. 8(3): p. e23448
  24. Ezer D, et al.
    The G-Box Transcriptional Regulatory Code in Arabidopsis.
    Plant Physiol., 2017. 175(2): p. 628-640
  25. 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.
  26. 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