PlantTFDB
Plant Transcription Factor Database
v4.0
Previous version: v1.0, v2.0, v3.0
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID AT4G16430.1
Common NameBHLH3, dl4240w, EN34, FCAALL.202, JAM3
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: 467aa    MW: 52233.8 Da    PI: 6.8493
Description bHLH family protein
Gene Model
Gene Model ID Type Source Coding Sequence
AT4G16430.1genomeTAIRView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1HLH38.91.6e-12320366455
                  HHHHHHHHHHHHHHHHHHHHHCTSCC.C...TTS-STCHHHHHHHHHHHHHHH CS
          HLH   4 ahnerErrRRdriNsafeeLrellPk.askapskKlsKaeiLekAveYIksLq 55 
                  +h e+Er+RR+++N++f  Lr ++P+ +      K++Ka+ L  A+ YI ++q
  AT4G16430.1 320 NHVEAERQRREKLNQRFYALRAVVPNiS------KMDKASLLADAITYITDMQ 366
                  799***********************66......***************9998 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF142156.2E-4250226IPR025610Transcription factor MYC/MYB N-terminal
PROSITE profilePS5088816.234316365IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
SuperFamilySSF474591.7E-17316382IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
CDDcd000838.41E-14319370No hitNo description
Gene3DG3DSA:4.10.280.101.1E-16320382IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
PfamPF000104.2E-10320366IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
SMARTSM003531.6E-14322371IPR011598Myc-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:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA 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: 467 aa     Download sequence    Send to blast
MGQKFWENQE DRAMVESTIG SEACDFFIST ASASNTALSK LVSPPSDSNL QQGLRHVVEG  60
SDWDYALFWL ASNVNSSDGC VLIWGDGHCR VKKGASGEDY SQQDEIKRRV LRKLHLSFVG  120
SDEDHRLVKS GALTDLDMFY LASLYFSFRC DTNKYGPAGT YVSGKPLWAA DLPSCLSYYR  180
VRSFLARSAG FQTVLSVPVN SGVVELGSLR HIPEDKSVIE MVKSVFGGSD FVQAKEAPKI  240
FGRQLSLGGA KPRSMSINFS PKTEDDTGFS LESYEVQAIG GSNQVYGYEQ GKDETLYLTD  300
EQKPRKRGRK PANGREEALN HVEAERQRRE KLNQRFYALR AVVPNISKMD KASLLADAIT  360
YITDMQKKIR VYETEKQIMK RRESNQITPA EVDYQQRHDD AVVRLSCPLE THPVSKVIQT  420
LRENEVMPHD SNVAITEEGV VHTFTLRPQG GCTAEQLKDK LLASLSQ
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4rqw_A8e-11502269192Transcription factor MYC3
4rqw_B8e-11502269192Transcription factor MYC3
4rs9_A8e-11502269192Transcription factor MYC3
4yz6_A8e-11502269192Transcription factor MYC3
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
At.44130.0floral meristem| flower| root| silique
Expression -- Microarray ? help Back to Top
Source ID E-value
GEO1453402920.0
Genevisible245271_at0.0
Expression AtlasAT4G16430-
AtGenExpressAT4G16430-
ATTED-IIAT4G16430-
Function -- GeneRIF ? help Back to Top
  1. JAM3 (At4g16430) negatively regulates the JA response in a manner that is mostly antagonistic to MYC2.
    [PMID: 23852442]
  2. These results suggest that JAM1, JAM2, and JAM3 act redundantly as negative regulators of jasmonic acid-mediated male fertility.
    [PMID: 24056034]
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00099PBM26531826Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapAT4G16430.1
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By UV treatment. {ECO:0000269|PubMed:12679534}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Phenotype -- Mutation ? help Back to Top
Source ID
T-DNA ExpressAT4G16430
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankCP0026870.0CP002687.1 Arabidopsis thaliana chromosome 4 sequence.
GenBankAL1615440.0AL161544.2 Arabidopsis thaliana DNA chromosome 4, contig fragment No. 44.
GenBankZ973410.0Z97341.2 Arabidopsis thaliana DNA chromosome 4, ESSA I FCA contig fragment No. 6.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqNP_193376.10.0transcription factor bHLH3
SwissprotO234870.0BH003_ARATH; Transcription factor bHLH3
TrEMBLD7M9V30.0D7M9V3_ARALL; Basic helix-loop-helix family protein
STRINGAT4G16430.10.0(Arabidopsis thaliana)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
Representative plantOGRP94301012
MalvidsOGEM66112741
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. 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]
  3. 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]
  4. Yamada K, et al.
    Empirical analysis of transcriptional activity in the Arabidopsis genome.
    Science, 2003. 302(5646): p. 842-6
    [PMID:14593172]
  5. 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]
  6. Casson S,Spencer M,Walker K,Lindsey K
    Laser capture microdissection for the analysis of gene expression during embryogenesis of Arabidopsis.
    Plant J., 2005. 42(1): p. 111-23
    [PMID:15773857]
  7. Spencer MW,Casson SA,Lindsey K
    Transcriptional profiling of the Arabidopsis embryo.
    Plant Physiol., 2007. 143(2): p. 924-40
    [PMID:17189330]
  8. Ascencio-Ib
    Global analysis of Arabidopsis gene expression uncovers a complex array of changes impacting pathogen response and cell cycle during geminivirus infection.
    Plant Physiol., 2008. 148(1): p. 436-54
    [PMID:18650403]
  9. Tominaga-Wada R,Iwata M,Nukumizu Y,Wada T
    Analysis of IIId, IIIe and IVa group basic-helix-loop-helix proteins expressed in Arabidopsis root epidermis.
    Plant Sci., 2011. 181(4): p. 471-8
    [PMID:21889054]
  10. 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]
  11. Sasaki-Sekimoto Y, et al.
    Basic helix-loop-helix transcription factors JASMONATE-ASSOCIATED MYC2-LIKE1 (JAM1), JAM2, and JAM3 are negative regulators of jasmonate responses in Arabidopsis.
    Plant Physiol., 2013. 163(1): p. 291-304
    [PMID:23852442]
  12. Song S, et al.
    The bHLH subgroup IIId factors negatively regulate jasmonate-mediated plant defense and development.
    PLoS Genet., 2013. 9(7): p. e1003653
    [PMID:23935516]
  13. Nakata M,Ohme-Takagi M
    Two bHLH-type transcription factors, JA-ASSOCIATED MYC2-LIKE2 and JAM3, are transcriptional repressors and affect male fertility.
    Plant Signal Behav, 2013. 8(12): p. e26473
    [PMID:24056034]