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 Carubv10008640m
Common NameCARUB_v10008640mg
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: 599aa    MW: 66820 Da    PI: 6.5715
Description bHLH family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Carubv10008640mgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1HLH39.97.7e-13441486454
                      HHHHHHHHHHHHHHHHHHHHHCTSCC.C...TTS-STCHHHHHHHHHHHHHH CS
              HLH   4 ahnerErrRRdriNsafeeLrellPk.askapskKlsKaeiLekAveYIksL 54 
                      +h e+Er+RR+++N++f  Lr+++P+ +      K++Ka+ L  Av YI++L
  Carubv10008640m 441 NHVEAERQRREKLNQRFYALRSVVPNiS------KMDKASLLGDAVSYINEL 486
                      799***********************66......***************998 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF142151.2E-5048236IPR025610Transcription factor MYC/MYB N-terminal
PROSITE profilePS5088817.326437486IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
SuperFamilySSF474599.29E-19440507IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
CDDcd000836.01E-14440491No hitNo description
PfamPF000102.0E-10441486IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
Gene3DG3DSA:4.10.280.106.2E-18441500IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
SMARTSM003534.8E-16443492IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0044212Molecular Functiontranscription regulatory region DNA binding
GO:0046983Molecular Functionprotein dimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 599 aa     Download sequence    Send to blast
MNIGGVVWNE DDKAIVASLL GKRALDYLLS NSVPNANLLM TVGSDENLQN KLSDLVERPN  60
ACNFSWNYAI FWQISRSKAG DLVLCWCDGS CREPKEGEKS EIVRILSMGR EEETYQTMRK  120
RVLQKLHAMF GEVEEDNCAL GLDRVTDTEM FLLASMYFSF PRGEGGPGKC FASGKPLWLS  180
DVVNSGSDYC VRSFLAKSAG IQTIVLVPTD IGVVELGSTS SLPESEESML SIRSLFSSTL  240
PPVTTVPAVA SPVVAAEKID DNRTVNASKI FGKDLHNSGF LHHQHHHQHH QQQPQQQQHR  300
QFREKLTVRK MDDRTPKRLD VYPNNGNRFM FSNPGNNNNN NTLLSPTWVQ PENYMRTNNV  360
KEVPTKEDFK FLPLQQSSQR LLPPAQMQID FSAASSRASE NNSDGEGGAE WADAVGADES  420
GNNRPRKRGR RPANGRAEAL NHVEAERQRR EKLNQRFYAL RSVVPNISKM DKASLLGDAV  480
SYINELHAKL KVMEAERERL GYSSNPPISL ESDIDVQTSG EDVTVRINCP LESHPASRIF  540
HAFEETKVEV INSNLEVSQD TVLHTFVVKS EELTKEKLIS ALSREQSSSV QSRTSSGR*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5gnj_A4e-26435497264Transcription factor MYC2
5gnj_B4e-26435497264Transcription factor MYC2
5gnj_E4e-26435497264Transcription factor MYC2
5gnj_F4e-26435497264Transcription factor MYC2
5gnj_G4e-26435497264Transcription factor MYC2
5gnj_I4e-26435497264Transcription factor MYC2
5gnj_M4e-26435497264Transcription factor MYC2
5gnj_N4e-26435497264Transcription factor MYC2
Search in ModeBase
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00100PBMTransfer from AT1G01260Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapCarubv10008640m
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
GenBankAC0236280.0AC023628.3 Arabidopsis thaliana chromosome I BAC F6F3 genomic sequence, complete sequence.
GenBankAF2516980.0AF251698.1 Arabidopsis thaliana putative transcription factor BHLH13 mRNA, complete cds.
GenBankAY0790120.0AY079012.1 Arabidopsis thaliana At1g01260/F6F3_25 mRNA, complete cds.
GenBankAY1207520.0AY120752.1 Arabidopsis thaliana transcription factor MYC7E, putative (At1g01260) mRNA, complete cds.
GenBankBT0045170.0BT004517.1 Arabidopsis thaliana At1g01260/F6F3_25 gene, complete cds.
GenBankCP0026840.0CP002684.1 Arabidopsis thaliana chromosome 1 sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006307052.10.0transcription factor bHLH13
RefseqXP_023645911.10.0transcription factor bHLH13
SwissprotQ9LNJ50.0BH013_ARATH; Transcription factor bHLH13
TrEMBLR0IMU80.0R0IMU8_9BRAS; Uncharacterized protein
STRINGXP_006307052.10.0(Capsella rubella)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM37582759
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G01260.30.0bHLH family protein
Publications ? help Back to Top
  1. 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]
  2. 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]
  3. Ezer D, et al.
    The G-Box Transcriptional Regulatory Code in Arabidopsis.
    Plant Physiol., 2017. 175(2): p. 628-640
    [PMID:28864470]