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 Carubv10007725m
Common NameCARUB_v10007725mg
Organism
Capsella rubella
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Capsella
Family bHLH
Protein Properties Length: 468aa    MW: 52162.7 Da    PI: 6.4179
Description bHLH family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Carubv10007725mgenomeJGIView 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
  Carubv10007725m 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
CDDcd000837.12E-14319370No hitNo description
PfamPF000104.2E-10320366IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
Gene3DG3DSA:4.10.280.101.1E-16320382IPR011598Myc-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:0046983Molecular Functionprotein dimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 468 aa     Download sequence    Send to blast
MGQKFWENLE DRAMVESTIG SEACDFFISS ASASNTALAK LVSPPSDSNL QQGLRHVVEG  60
SDWDYALFWL ASNVNSSDGC VLIWGDGHCR VNKGVSGEDY SQQDETKRRV LRKLHLSFVG  120
SDEDPRLAKS GALTDLDMFY LASLYFSFRC DSNKYGPAGT YVSGKPLWAA DLPSCLSYYR  180
VRSFLARSAG FQTVLSVPVN CGVVELGSLR NIPEDKSVIE MVKSVFGGSD FVQAKEAPKI  240
FGRQLSLGGA KPRSMSINFS PKTEDDSGFS LESYEVQAIG SSNQVYPYEQ GKDETLYLTD  300
EQKPRKRGRK PANGREEALN HVEAERQRRE KLNQRFYALR AVVPNISKMD KASLLADAIT  360
YITDMQKKIR VYETEKQIMK RRESNQITPA EVDYQQRQDD AVVRLSCPLE THPVSKVVQT  420
LRENEVMPHD SNVAVTEEGV VHTFTIRPQG GCTTEQLKDR LLASIAQ*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5gnj_A5e-26314397281Transcription factor MYC2
5gnj_B5e-26314397281Transcription factor MYC2
5gnj_E5e-26314397281Transcription factor MYC2
5gnj_F5e-26314397281Transcription factor MYC2
5gnj_G5e-26314397281Transcription factor MYC2
5gnj_I5e-26314397281Transcription factor MYC2
5gnj_M5e-26314397281Transcription factor MYC2
5gnj_N5e-26314397281Transcription factor MYC2
Search in ModeBase
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00099PBMTransfer from AT4G16430Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapCarubv10007725m
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
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAF2516880.0AF251688.1 Arabidopsis thaliana putative transcription factor BHLH3 (BHLH3) mRNA, complete cds.
GenBankAL1615440.0AL161544.2 Arabidopsis thaliana DNA chromosome 4, contig fragment No. 44.
GenBankCP0026870.0CP002687.1 Arabidopsis thaliana chromosome 4 sequence.
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
RefseqXP_006282965.10.0transcription factor bHLH3
SwissprotO234870.0BH003_ARATH; Transcription factor bHLH3
TrEMBLR0GXH80.0R0GXH8_9BRAS; Uncharacterized protein
STRINGXP_006282965.10.0(Capsella rubella)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM66112741
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G16430.10.0bHLH family protein
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. Sasaki-Sekimoto Y,Saito H,Masuda S,Shirasu K,Ohta H
    Comprehensive analysis of protein interactions between JAZ proteins and bHLH transcription factors that negatively regulate jasmonate signaling.
    Plant Signal Behav, 2014. 9(1): p. e27639
    [PMID:24394987]
  3. Fonseca S, et al.
    bHLH003, bHLH013 and bHLH017 are new targets of JAZ repressors negatively regulating JA responses.
    PLoS ONE, 2014. 9(1): p. e86182
    [PMID:24465948]
  4. Ezer D, et al.
    The G-Box Transcriptional Regulatory Code in Arabidopsis.
    Plant Physiol., 2017. 175(2): p. 628-640
    [PMID:28864470]