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 Cagra.2428s0008.1.p
Organism
Capsella grandiflora
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: 177aa    MW: 19148.8 Da    PI: 5.2684
Description bHLH family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Cagra.2428s0008.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1HLH41.13.3e-13691091055
                          HHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS
                  HLH  10 rrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55 
                          ++RR++iN+++  L++l+P++      K +Ka++L +A+eY+k+Lq
  Cagra.2428s0008.1.p  69 KKRRSKINEKMKALQKLIPNS-----NKTDKASMLDEAIEYLKQLQ 109
                          8*******************7.....5******************9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5088815.07259108IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
SMARTSM003534.2E-1366114IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
SuperFamilySSF474596.54E-1669116IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
PfamPF000101.5E-1069109IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
CDDcd000833.92E-1469113No hitNo description
Gene3DG3DSA:4.10.280.105.1E-1669116IPR011598Myc-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: 177 aa     Download sequence    Send to blast
MGDSDVGDRL APASSSDELS SFLRQILTRA PTAHPSSPPK TSVSSGETFP SVGNGVAETS  60
QDKYAFENKK RRSKINEKMK ALQKLIPNSN KTDKASMLDE AIEYLKQLQL QVQTLAVMNG  120
LGLNPIRLPP VLPPTQTLIN ETLEQDLNLE TLLAAPHSLE LPQASQEMCF SAATLF*
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
16873KKRRSK
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
PlantRegMapCagra.2428s0008.1.p
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK1759561e-116AK175956.1 Arabidopsis thaliana mRNA for putative bHLH transcription factor (bHLH073/ALCATRAZ), complete cds, clone: RAFL22-64-A13.
GenBankAY0846321e-116AY084632.1 Arabidopsis thaliana clone 11375 mRNA, complete sequence.
GenBankBT0289461e-116BT028946.1 Arabidopsis thaliana At5g67110 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006282286.11e-119transcription factor ALC
SwissprotQ9FHA28e-95ALC_ARATH; Transcription factor ALC
TrEMBLR0GEL91e-118R0GEL9_9BRAS; Uncharacterized protein
STRINGCagra.2428s0008.1.p1e-125(Capsella grandiflora)
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
AT5G67110.13e-97bHLH 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]