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 Carubv10028570m
Common NameCARUB_v10028570mg
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: 201aa    MW: 21954.9 Da    PI: 8.4853
Description bHLH family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Carubv10028570mgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1HLH50.15.1e-1688133555
                      HHHHHHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS
              HLH   5 hnerErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55 
                      hn  E++RR++iN+++  L++l+P++      K +Ka++L +A+eY+k+Lq
  Carubv10028570m  88 HNLSEKKRRSKINEKMKALQKLIPNS-----NKTDKASMLDEAIEYLKQLQ 133
                      9************************7.....5******************9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5088817.03483132IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
SuperFamilySSF474592.36E-1987153IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
PfamPF000101.8E-1388133IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
CDDcd000831.38E-1688137No hitNo description
Gene3DG3DSA:4.10.280.103.2E-1988140IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
SMARTSM003534.2E-1889138IPR011598Myc-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:0010047Biological Processfruit dehiscence
GO:0005634Cellular Componentnucleus
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0046983Molecular Functionprotein dimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 201 aa     Download sequence    Send to blast
MGDSDVGDRL APASSSDELS SFLRQILSRA PTAHPSSPPK TSVSSGETFP SVGNGVAETS  60
QDKYAFENKR NGGRQKNSLK RNMDAHFHNL SEKKRRSKIN EKMKALQKLI PNSNKTDKAS  120
MLDEAIEYLK QLQLQVQTLA VMNGLGLNPI RLPPVLPPTQ TLINETLEQD LNLETLLAAP  180
HSLEIPQASQ EMCFSAATLF *
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
19297KKRRSK
Functional Description ? help Back to Top
Source Description
UniProtRequired for the dehiscence of fruit, especially for the separation of the valve cells from the replum. Promotes the differentiation of a strip of labile nonlignified cells sandwiched between layers of lignified cells. {ECO:0000269|PubMed:11747817}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapCarubv10028570m
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAY0846321e-164AY084632.1 Arabidopsis thaliana clone 11375 mRNA, complete sequence.
GenBankBT0289461e-164BT028946.1 Arabidopsis thaliana At5g67110 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006282286.11e-145transcription factor ALC
SwissprotQ9FHA21e-116ALC_ARATH; Transcription factor ALC
TrEMBLR0GEL91e-144R0GEL9_9BRAS; Uncharacterized protein
STRINGXP_006282286.11e-145(Capsella rubella)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM139821724
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G67110.11e-118bHLH 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. Pabón-Mora N,Wong GK,Ambrose BA
    Evolution of fruit development genes in flowering plants.
    Front Plant Sci, 2014. 5: p. 300
    [PMID:25018763]
  3. Pfannebecker KC,Lange M,Rupp O,Becker A
    Seed Plant-Specific Gene Lineages Involved in Carpel Development.
    Mol. Biol. Evol., 2017. 34(4): p. 925-942
    [PMID:28087776]
  4. Zumajo-Cardona C,Ambrose BA,Pabón-Mora N
    Evolution of the SPATULA/ALCATRAZ gene lineage and expression analyses in the basal eudicot, Bocconia frutescens L. (Papaveraceae).
    Evodevo, 2017. 8: p. 5
    [PMID:28331573]
  5. He H, et al.
    CELLULASE6 and MANNANASE7 Affect Cell Differentiation and Silique Dehiscence.
    Plant Physiol., 2018. 176(3): p. 2186-2201
    [PMID:29348141]