PlantTFDB
Plant Transcription Factor Database
v4.0
Previous version: v3.0
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID AT5G08130.2
Common NameBHLH46, BIM1, EN126, T22D6.70
Organism
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: 529aa    MW: 58710.4 Da    PI: 8.1608
Description bHLH family protein
Gene Model
Gene Model ID Type Source Coding Sequence
AT5G08130.2genomeTAIRView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1HLH55.69.6e-18278327255
                  HHHHHHHHHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS
          HLH   2 rrahnerErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55 
                  r +h++ E+rRR++iN++f+ Lr+l+P++    ++K +Ka+ L +++eYI+ Lq
  AT5G08130.2 278 RSKHSATEQRRRSKINDRFQMLRQLIPNS----DQKRDKASFLLEVIEYIQFLQ 327
                  889*************************9....9*******************9 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:4.10.280.102.8E-23275347IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
PROSITE profilePS5088817.225276326IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
SuperFamilySSF474591.23E-18277346IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
PfamPF000103.2E-15278327IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
CDDcd000831.22E-14278329No hitNo description
SMARTSM003533.4E-13282332IPR011598Myc-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:0006355Biological Processregulation of transcription, 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:0005515Molecular Functionprotein binding
GO:0046983Molecular Functionprotein dimerization activity
Plant Ontology ? help Back to Top
PO Term PO Category PO Description
PO:0000013anatomycauline leaf
PO:0000037anatomyshoot apex
PO:0000230anatomyinflorescence meristem
PO:0000293anatomyguard cell
PO:0008019anatomyleaf lamina base
PO:0009005anatomyroot
PO:0009006anatomyshoot system
PO:0009009anatomyplant embryo
PO:0009010anatomyseed
PO:0009025anatomyvascular leaf
PO:0009029anatomystamen
PO:0009030anatomycarpel
PO:0009031anatomysepal
PO:0009032anatomypetal
PO:0009046anatomyflower
PO:0009047anatomystem
PO:0009052anatomyflower pedicel
PO:0020030anatomycotyledon
PO:0020038anatomypetiole
PO:0020100anatomyhypocotyl
PO:0020137anatomyleaf apex
PO:0025022anatomycollective leaf structure
PO:0025281anatomypollen
PO:0001054developmental stagevascular leaf senescent stage
PO:0001078developmental stageplant embryo cotyledonary stage
PO:0001081developmental stagemature plant embryo stage
PO:0001185developmental stageplant embryo globular stage
PO:0004507developmental stageplant embryo bilateral stage
PO:0007064developmental stageLP.12 twelve leaves visible stage
PO:0007095developmental stageLP.08 eight leaves visible stage
PO:0007098developmental stageLP.02 two leaves visible stage
PO:0007103developmental stageLP.10 ten leaves visible stage
PO:0007115developmental stageLP.04 four leaves visible stage
PO:0007123developmental stageLP.06 six leaves visible stage
PO:0007611developmental stagepetal differentiation and expansion stage
PO:0007616developmental stageflowering stage
Sequence ? help Back to Top
Protein Sequence    Length: 529 aa     Download sequence    Send to blast
MELPQPRPFK TQGRKPTHDF LSLCSHSTVH PDPKPTPPPS SQGSHLKTHD FLQPLECVGA  60
KEDVSRINST TTASEKPPPP APPPPLQHVL PGGIGTYTIS PIPYFHHHHQ RIPKPELSPP  120
MMFNANERNV LDENSNSNCS SYAAASSGFT LWDESASGKK GQTRKENSVG ERVNMRADVA  180
ATVGQWPVAE RRSQSLTNNH MSGFSSLSSS QGSVLKSQSF MDMIRSAKGS SQEDDLDDEE  240
DFIMKKESSS TSQSHRVDLR VKADVRGSPN DQKLNTPRSK HSATEQRRRS KINDRFQMLR  300
QLIPNSDQKR DKASFLLEVI EYIQFLQEKA DKYVTSYQGW NHEPAKLLNW QSNNNQQLVP  360
EGVAFAPKLE EEKNNIPVSV LATAQGVVID HPTTATTSPF PLSIQSNSFF SPVIAGNPVP  420
QFHARVASSE AVEPSPSSRS QKEEEDEEVL EGNIRISSVY SQGLVKTLRE ALENSGVDLT  480
KASISVEIEL AKQSSSSSFK DHEVREPVSR TRNDNVKQTR KPKRLKTGQ
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
At.209600.0bud| flower| root| seed
Expression -- Microarray ? help Back to Top
Source ID E-value
Genevisible250569_at0.0
Expression AtlasAT5G08130-
AtGenExpressAT5G08130-
ATTED-IIAT5G08130-
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed constitutively in roots. {ECO:0000269|PubMed:12679534}.
Functional Description ? help Back to Top
Source Description
TAIRArabidopsis thaliana basic helix-loop-helix (bHLH) family protein involved in brassinosteroid signaling. It synergistically interacts with BES1 to bind to E box sequences (CANNTG).
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}.
Function -- GeneRIF ? help Back to Top
  1. role of BIM1 in embryonic development not only implicates a function for brassinosteroids in this process, but the interaction of BIM1 with DRN, involved with auxin signalling, represents a possible point of hormonal crosstalk in embryonic patterning
    [PMID: 18830673]
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00498DAP27203113Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapAT5G08130.2
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
Regulation -- ATRM (Manually Curated Upstream Regulators) ? help Back to Top
Source Upstream Regulator (A: Activate/R: Repress)
ATRM AT2G20180 (A)
Regulation -- ATRM (Manually Curated Target Genes) ? help Back to Top
Source Target Gene (A: Activate/R: Repress)
ATRM AT4G38850(A)
Regulation -- Hormone ? help Back to Top
Source Hormone
AHDbrassinosteroid
Interaction -- BIND ? help Back to Top
Source Intact With Description
BINDAT1G19350An unspecified isoform of BES1 interacts with BIM1.
Interaction ? help Back to Top
Source Intact With
BioGRIDAT1G12980, AT1G19350, AT1G24590, AT1G30490
IntActSearch Q9LEZ3
Phenotype -- Mutation ? help Back to Top
Source ID
T-DNA ExpressAT5G08130
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAF4885810.0AF488581.1 Arabidopsis thaliana clone bHLH046 putative bHLH transcription factor mRNA, partial sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqNP_001119190.10.0transcription factor BIM1
RefseqNP_001190257.10.0transcription factor BIM1
SwissprotQ9LEZ30.0BIM1_ARATH; Transcription factor BIM1
TrEMBLF4K9L30.0F4K9L3_ARATH; Transcription factor BIM1
STRINGAT5G08130.50.0(Arabidopsis thaliana)
Publications ? help Back to Top
  1. Riechmann JL, et al.
    Arabidopsis transcription factors: genome-wide comparative analysis among eukaryotes.
    Science, 2000. 290(5499): p. 2105-10
    [PMID:11118137]
  2. Yin Y, et al.
    BES1 accumulates in the nucleus in response to brassinosteroids to regulate gene expression and promote stem elongation.
    Cell, 2002. 109(2): p. 181-91
    [PMID:12007405]
  3. R
    Rapid identification of Arabidopsis insertion mutants by non-radioactive detection of T-DNA tagged genes.
    Plant J., 2002. 32(2): p. 243-53
    [PMID:12383089]
  4. 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
    [PMID:12679534]
  5. Toledo-Ortiz G,Huq E,Quail PH
    The Arabidopsis basic/helix-loop-helix transcription factor family.
    Plant Cell, 2003. 15(8): p. 1749-70
    [PMID:12897250]
  6. 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
    [PMID:14600211]
  7. 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
    [PMID:15078338]
  8. Yin Y, et al.
    A new class of transcription factors mediates brassinosteroid-regulated gene expression in Arabidopsis.
    Cell, 2005. 120(2): p. 249-59
    [PMID:15680330]
  9. Gao M,Li G,McCombie WR,Quiros CF
    Comparative analysis of a transposon-rich Brassica oleracea BAC clone with its corresponding sequence in A. thaliana.
    Theor. Appl. Genet., 2005. 111(5): p. 949-55
    [PMID:16044267]
  10. Ohashi-Ito K,Bergmann DC
    Regulation of the Arabidopsis root vascular initial population by LONESOME HIGHWAY.
    Development, 2007. 134(16): p. 2959-68
    [PMID:17626058]
  11. Gampala SS, et al.
    An essential role for 14-3-3 proteins in brassinosteroid signal transduction in Arabidopsis.
    Dev. Cell, 2007. 13(2): p. 177-89
    [PMID:17681130]
  12. Catala R, et al.
    The Arabidopsis E3 SUMO ligase SIZ1 regulates plant growth and drought responses.
    Plant Cell, 2007. 19(9): p. 2952-66
    [PMID:17905899]
  13. Chandler JW,Cole M,Flier A,Werr W
    BIM1, a bHLH protein involved in brassinosteroid signalling, controls Arabidopsis embryonic patterning via interaction with DORNROSCHEN and DORNROSCHEN-LIKE.
    Plant Mol. Biol., 2009. 69(1-2): p. 57-68
    [PMID:18830673]
  14. Oh E, et al.
    Genome-wide analysis of genes targeted by PHYTOCHROME INTERACTING FACTOR 3-LIKE5 during seed germination in Arabidopsis.
    Plant Cell, 2009. 21(2): p. 403-19
    [PMID:19244139]
  15. Elrouby N,Coupland G
    Proteome-wide screens for small ubiquitin-like modifier (SUMO) substrates identify Arabidopsis proteins implicated in diverse biological processes.
    Proc. Natl. Acad. Sci. U.S.A., 2010. 107(40): p. 17415-20
    [PMID:20855607]
  16. Efroni I, et al.
    Regulation of leaf maturation by chromatin-mediated modulation of cytokinin responses.
    Dev. Cell, 2013. 24(4): p. 438-45
    [PMID:23449474]
  17. Cifuentes-Esquivel N, et al.
    The bHLH proteins BEE and BIM positively modulate the shade avoidance syndrome in Arabidopsis seedlings.
    Plant J., 2013. 75(6): p. 989-1002
    [PMID:23763263]
  18. We
    Convergent targeting of a common host protein-network by pathogen effectors from three kingdoms of life.
    Cell Host Microbe, 2014. 16(3): p. 364-75
    [PMID:25211078]
  19. Jin J, et al.
    An Arabidopsis Transcriptional Regulatory Map Reveals Distinct Functional and Evolutionary Features of Novel Transcription Factors.
    Mol. Biol. Evol., 2015. 32(7): p. 1767-73
    [PMID:25750178]