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 Carubv10026606m
Common NameCARUB_v10026606mg
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: 376aa    MW: 42199.4 Da    PI: 4.6576
Description bHLH family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Carubv10026606mgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1HLH38.32.4e-12204247654
                      HHHHHHHHHHHHHHHHHHHCTSCC.C...TTS-STCHHHHHHHHHHHHHH CS
              HLH   6 nerErrRRdriNsafeeLrellPk.askapskKlsKaeiLekAveYIksL 54 
                       ++ErrRR+r+N++++ Lr+++Pk +      K++  +iL  A++Y+k+L
  Carubv10026606m 204 LMAERRRRKRLNDRLSMLRSIVPKiS------KMDRTSILGDAIDYMKEL 247
                      589*********************66......****************98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5088815.643198247IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
SuperFamilySSF474592.88E-16201266IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
SMARTSM003531.6E-12204253IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
PfamPF000104.8E-10204247IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
Gene3DG3DSA:4.10.280.101.2E-16205265IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
CDDcd000835.88E-5205247No hitNo description
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: 376 aa     Download sequence    Send to blast
SVFSSFLLLL LPETRVSDKR AKNNMELSRQ MNVFEELLVP TKQETTDNNM NNLSFNGGFD  60
HHHQFFPNGY SIDYLCFNNE EEDENTLLYP SSFMDLISQP PPLLLHQPPL LQPPSPPLSS  120
SAATAAATFD YPFLEALQEI IDSSSSSPPL ILQNGQEENF NNPTSYPSPL MESDQSKSFS  180
VGYCGGETNK KKSKKLEGQP SKNLMAERRR RKRLNDRLSM LRSIVPKISK MDRTSILGDA  240
IDYMKELLDK INKLQDEEQE LGNSNNSHHS KLFGDLKDLN TNEPMVRNSP KFEIDRRDDD  300
TRVDICCSPK PGLLLSTVNT LETLGLEIEQ CVISCFSDFS LQASCSEGAE QRDFITSEDI  360
KQALFRNAGY GGSCL*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5gnj_A2e-12199277583Transcription factor MYC2
5gnj_B2e-12199277583Transcription factor MYC2
5gnj_E2e-12199277583Transcription factor MYC2
5gnj_F2e-12199277583Transcription factor MYC2
5gnj_G2e-12199277583Transcription factor MYC2
5gnj_I2e-12199277583Transcription factor MYC2
5gnj_M2e-12199277583Transcription factor MYC2
5gnj_N2e-12199277583Transcription factor MYC2
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1189211KKKSKKLEGQPSKNLMAERRRRK
2206213ERRRRKRL
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor. May be involved in the differentiation of stomatal guard cells. {ECO:0000269|PubMed:17088607}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapCarubv10026606m
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAY0851340.0AY085134.1 Arabidopsis thaliana clone 13267 mRNA, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006280645.20.0transcription factor bHLH93
SwissprotQ9LSL10.0BH093_ARATH; Transcription factor bHLH93
TrEMBLR0GQW20.0R0GQW2_9BRAS; Uncharacterized protein (Fragment)
STRINGXP_006280645.10.0(Capsella rubella)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM20432878
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G65640.10.0beta HLH protein 93
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. Ding Y, et al.
    Four distinct types of dehydration stress memory genes in Arabidopsis thaliana.
    BMC Plant Biol., 2013. 13: p. 229
    [PMID:24377444]
  3. Sharma N, et al.
    NO FLOWERING IN SHORT DAY (NFL) is a bHLH transcription factor that promotes flowering specifically under short-day conditions in Arabidopsis.
    Development, 2016. 143(4): p. 682-90
    [PMID:26758694]
  4. Chen YS, et al.
    Two MYB-related transcription factors play opposite roles in sugar signaling in Arabidopsis.
    Plant Mol. Biol., 2017. 93(3): p. 299-311
    [PMID:27866313]
  5. Ezer D, et al.
    The G-Box Transcriptional Regulatory Code in Arabidopsis.
    Plant Physiol., 2017. 175(2): p. 628-640
    [PMID:28864470]