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 AT4G29930.2
Organism
Arabidopsis thaliana
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: 225aa    MW: 25769.1 Da    PI: 4.4062
Description bHLH family protein
Gene Model
Gene Model ID Type Source Coding Sequence
AT4G29930.2genomeTAIRView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1HLH35.41.9e-115799754
                 HHHHHHHHHHHHHHHHHHCTSCC.C...TTS-STCHHHHHHHHHHHHHH CS
          HLH  7 erErrRRdriNsafeeLrellPk.askapskKlsKaeiLekAveYIksL 54
                   Er+RR+++N++++ Lr+++P+ +      Kl+Ka++ +  ++Y+++L
  AT4G29930.2 57 VSERNRRQKLNQRLFALRSVVPNiS------KLDKASVIKDSIDYMQEL 99
                 57*********************66......***************987 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5088816.0255099IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
CDDcd000837.54E-115399No hitNo description
SuperFamilySSF474592.75E-1653119IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
SMARTSM003535.0E-1356105IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
Gene3DG3DSA:4.10.280.104.6E-1656118IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
PfamPF000104.3E-95799IPR011598Myc-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:0000293anatomyguard cell
Sequence ? help Back to Top
Protein Sequence    Length: 225 aa     Download sequence    Send to blast
MEDLDHEYKN YWETTMFFQN QELEFDSWPM EEAFSGSGES SSPDGAATSP ASSKNVVSER  60
NRRQKLNQRL FALRSVVPNI SKLDKASVIK DSIDYMQELI DQEKTLEAEI RELESRSTLL  120
ENPMDYSTRV QHYPIEVLEM KVTWMGEKTV VVCITCSKKR ETMVQLCKVL ESLNLNILTT  180
NFSSFTSRLS TTLFLQADEE ESSAVEAKIQ MAIAAYNDPN CLINF
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5gnj_A4e-1455131983Transcription factor MYC2
5gnj_B4e-1455131983Transcription factor MYC2
5gnj_E4e-1455131983Transcription factor MYC2
5gnj_F4e-1455131983Transcription factor MYC2
5gnj_G4e-1455131983Transcription factor MYC2
5gnj_I4e-1455131983Transcription factor MYC2
5gnj_M4e-1455131983Transcription factor MYC2
5gnj_N4e-1455131983Transcription factor MYC2
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
At.440680.0root
Expression -- Microarray ? help Back to Top
Source ID
Expression AtlasAT4G29930
AtGenExpressAT4G29930
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed constitutively in roots, leaves, stems, and flowers. {ECO:0000269|PubMed:12679534}.
Function -- GeneRIF ? help Back to Top
  1. Two Arabidopsis basic helix-loop-helix transcription factors bHLH25 and bHLH27 positively influence cyst nematode parasitism.
    [PMID: 21223395]
Cis-element ? help Back to Top
SourceLink
PlantRegMapAT4G29930.2
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Interaction ? help Back to Top
Source Intact With
BioGRIDAT4G37850, AT5G13080, AT5G46690, AT1G79430
Phenotype -- Mutation ? help Back to Top
Source ID
T-DNA ExpressAT4G29930
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK1766740.0AK176674.1 Arabidopsis thaliana mRNA for bHLH transcription factor (bHLH027) - like protein, complete cds, clone: RAFL25-21-A13.
GenBankAK2222120.0AK222212.1 Arabidopsis thaliana mRNA for bHLH transcription factor - like protein, complete cds, clone: RAFL25-21-A14.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqNP_001031752.11e-167basic helix-loop-helix (bHLH) DNA-binding superfamily protein
SwissprotQ700E31e-138BH027_ARATH; Transcription factor bHLH27
TrEMBLA0A1P8B6L11e-164A0A1P8B6L1_ARATH; Basic helix-loop-helix (BHLH) DNA-binding superfamily protein
STRINGBostr.7867s0840.1.p1e-150(Boechera stricta)
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. 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]
  5. Jiao Y, et al.
    A genome-wide analysis of blue-light regulation of Arabidopsis transcription factor gene expression during seedling development.
    Plant Physiol., 2003. 133(4): p. 1480-93
    [PMID:14605227]
  6. Gong W, et al.
    Genome-wide ORFeome cloning and analysis of Arabidopsis transcription factor genes.
    Plant Physiol., 2004. 135(2): p. 773-82
    [PMID:15208423]
  7. De Paepe A,Vuylsteke M,Van Hummelen P,Zabeau M,Van Der Straeten D
    Transcriptional profiling by cDNA-AFLP and microarray analysis reveals novel insights into the early response to ethylene in Arabidopsis.
    Plant J., 2004. 39(4): p. 537-59
    [PMID:15272873]
  8. Bauer P, et al.
    Analysis of sequence, map position, and gene expression reveals conserved essential genes for iron uptake in Arabidopsis and tomato.
    Plant Physiol., 2004. 136(4): p. 4169-83
    [PMID:15531708]
  9. Rehrauer H, et al.
    AGRONOMICS1: a new resource for Arabidopsis transcriptome profiling.
    Plant Physiol., 2010. 152(2): p. 487-99
    [PMID:20032078]
  10. Jin J,Hewezi T,Baum TJ
    The Arabidopsis bHLH25 and bHLH27 transcription factors contribute to susceptibility to the cyst nematode Heterodera schachtii.
    Plant J., 2011. 65(2): p. 319-28
    [PMID:21223395]
  11. Arabidopsis Interactome Mapping Consortium
    Evidence for network evolution in an Arabidopsis interactome map.
    Science, 2011. 333(6042): p. 601-7
    [PMID:21798944]
  12. Ding Y, et al.
    Four distinct types of dehydration stress memory genes in Arabidopsis thaliana.
    BMC Plant Biol., 2013. 13: p. 229
    [PMID:24377444]