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 Carubv10003900m
Common NameCARUB_v10003900mg
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: 219aa    MW: 24315.1 Da    PI: 6.5133
Description bHLH family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Carubv10003900mgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1HLH26.79.8e-09127167954
                      HHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHH CS
              HLH   9 ErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksL 54 
                       r RR+ri +++  L++l+P       +K++ a++L +A++Y+k L
  Carubv10003900m 127 ARHRRERISERIRILQRLVPGG-----TKMDTASMLDEAIRYVKFL 167
                      699*****************87.....8****************98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5088815.091118167IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
SuperFamilySSF474597.07E-14123176IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
SMARTSM003531.2E-12124173IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
Gene3DG3DSA:4.10.280.108.6E-12124174IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
PfamPF000104.2E-6128167IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
CDDcd000834.53E-6141172No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0010500Biological Processtransmitting tissue development
GO:0048462Biological Processcarpel formation
GO:0046983Molecular Functionprotein dimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 219 aa     Download sequence    Send to blast
MNPSLFQSYT WNNIINSSNN NNKNDHHHHN DPIGMVMDQH THLHIFNNPF SSSHFTPLSS  60
SLATTTLFSG DQADEEDEEE PLEELGAMKE MMYKIAAMQP VDIDPASVKK PKRRNVRISD  120
DPQSVAARHR RERISERIRI LQRLVPGGTK MDTASMLDEA IRYVKFLKRQ IRLLNNNPGN  180
HPPPPQDQAS QAVTTSWVSP PNFGGGEGGG GGGGEELI*
Functional Description ? help Back to Top
Source Description
UniProtRequired for the female reproductive tract development and fertility. {ECO:0000269|PubMed:17855426}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapCarubv10003900m
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Negatively regulated by ARF3/ETT in the abaxial gynoecium. {ECO:0000269|PubMed:17855426}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC2545970.0AC254597.1 Capsella rubella clone CAP08-M05, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006290209.21e-162transcription factor HEC3, partial
SwissprotQ9LXD83e-88HEC3_ARATH; Transcription factor HEC3
TrEMBLR0FKX91e-161R0FKX9_9BRAS; Uncharacterized protein
STRINGXP_006290209.11e-162(Capsella rubella)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM44492754
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G09750.11e-57bHLH 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. Zhu L, et al.
    A Negative Feedback Loop between PHYTOCHROME INTERACTING FACTORs and HECATE Proteins Fine-Tunes Photomorphogenesis in Arabidopsis.
    Plant Cell, 2016. 28(4): p. 855-74
    [PMID:27073231]