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 Carubv10009081m
Common NameCARUB_v10009081mg
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: 462aa    MW: 50660.6 Da    PI: 5.8378
Description bHLH family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Carubv10009081mgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1HLH35.61.7e-11281323754
                      HHHHHHHHHHHHHHHHHHCTSCC.C...TTS-STCHHHHHHHHHHHHHH CS
              HLH   7 erErrRRdriNsafeeLrellPk.askapskKlsKaeiLekAveYIksL 54 
                      ++ErrRR+++N+++  Lr+++P+ +      K++ a+iL  A++Y+k+L
  Carubv10009081m 281 MAERRRRKKLNDRLYMLRSVVPNiS------KMDRASILGDAIDYLKEL 323
                      79*********************66......****************98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5088816.196274323IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
SuperFamilySSF474592.09E-17277348IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
SMARTSM003531.5E-14280329IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
PfamPF000104.2E-9280323IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
CDDcd000836.00E-13281327No hitNo description
Gene3DG3DSA:4.10.280.105.4E-16281338IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
PROSITE profilePS516718.849389461IPR002912ACT domain
CDDcd048737.12E-7390453No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0008152Biological Processmetabolic process
GO:0010444Biological Processguard mother cell differentiation
GO:0050826Biological Processresponse to freezing
GO:0016597Molecular Functionamino acid binding
GO:0046983Molecular Functionprotein dimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 462 aa     Download sequence    Send to blast
MNGDGVWLDG GGERSPEVDN GEAASWVRNP DEDWFSNPTP SQHLQDSQIL HSSNNNQSDF  60
RFSGGFPLNP SENLLLLLQQ SIDSSSSSAP LHPFTLDAAS QQLRQQQEQS FLATKACIAS  120
LLSVPTSSNN NAFDEFGFDS GFLGQQFHGN QTPNSMSFAG LSHPGPDFLT SRSIPAPENS  180
SGSCGLSPLF ENRAKVLKPL EVLASSGSQP TLFQKRAAMR QSSSSKMCNS ESSSEMRKSS  240
YEREIDDTST GIIDISGLNY ESDEHNNNKG KKKGMPAKNL MAERRRRKKL NDRLYMLRSV  300
VPNISKMDRA SILGDAIDYL KELLQRINDL HTELESTPPS SSSLHPLTPT PQTLSYRVKE  360
ELCPSSSLPS PKGQQPRVEV RLREGKAVNI HMFCGRRPGL LLSTMRALDN LGLDVQQAVI  420
SCFNGFALDV FRAEQCQEDH EVLPEQIKAV LLDTAGYAGL V*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5gnj_A1e-13276333663Transcription factor MYC2
5gnj_B1e-13276333663Transcription factor MYC2
5gnj_E1e-13276333663Transcription factor MYC2
5gnj_F1e-13276333663Transcription factor MYC2
5gnj_G1e-13276333663Transcription factor MYC2
5gnj_I1e-13276333663Transcription factor MYC2
5gnj_M1e-13276333663Transcription factor MYC2
5gnj_N1e-13276333663Transcription factor MYC2
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1270288KKKGMPAKNLMAERRRRKK
2282289ERRRRKKL
Functional Description ? help Back to Top
Source Description
UniProtMediates stomatal differentiation in the epidermis probably by controlling successive roles of SPCH, MUTE, and FAMA (PubMed:18641265). Functions as a dimer with SPCH during stomatal initiation (PubMed:18641265, PubMed:28507175). {ECO:0000269|PubMed:18641265, ECO:0000269|PubMed:28507175}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapCarubv10009081m
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK1180110.0AK118011.1 Arabidopsis thaliana At1g12860 mRNA for putative bHLH transcription factor (bHLH033), complete cds, clone: RAFL19-21-N13.
GenBankBT0053770.0BT005377.1 Arabidopsis thaliana At1g12860 mRNA, complete cds.
GenBankEU3696700.0EU369670.1 Arabidopsis thaliana bHLH protein (SCREAM2) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006307455.10.0transcription factor SCREAM2
SwissprotQ9LPW30.0SCRM2_ARATH; Transcription factor SCREAM2
TrEMBLR0ISL00.0R0ISL0_9BRAS; Uncharacterized protein
STRINGXP_006307455.10.0(Capsella rubella)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM19522782
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G12860.10.0bHLH family protein
Publications ? help Back to Top
  1. Tarasov VA,Khadeeva NV,Mel'nik VA,Ezhova TA,Shestakov SV
    The Atlg12860 gene of Arabidopsis thaliana determines cathelicidin-like antimicrobial activity.
    Dokl. Biol. Sci., 2009.
    [PMID:19760875]
  2. 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]
  3. Ding Y, et al.
    Four distinct types of dehydration stress memory genes in Arabidopsis thaliana.
    BMC Plant Biol., 2013. 13: p. 229
    [PMID:24377444]
  4. Emmerstorfer A, et al.
    Over-expression of ICE2 stabilizes cytochrome P450 reductase in Saccharomyces cerevisiae and Pichia pastoris.
    Biotechnol J, 2015. 10(4): p. 623-35
    [PMID:25641738]
  5. Lee HG,Seo PJ
    The MYB96-HHP module integrates cold and abscisic acid signaling to activate the CBF-COR pathway in Arabidopsis.
    Plant J., 2015. 82(6): p. 962-77
    [PMID:25912720]
  6. Raissig MT,Abrash E,Bettadapur A,Vogel JP,Bergmann DC
    Grasses use an alternatively wired bHLH transcription factor network to establish stomatal identity.
    Proc. Natl. Acad. Sci. U.S.A., 2016. 113(29): p. 8326-31
    [PMID:27382177]
  7. Fu ZW,Wang YL,Lu YT,Yuan TT
    Nitric oxide is involved in stomatal development by modulating the expression of stomatal regulator genes in Arabidopsis.
    Plant Sci., 2016. 252: p. 282-289
    [PMID:27717464]
  8. de Marcos A, et al.
    A Mutation in the bHLH Domain of the SPCH Transcription Factor Uncovers a BR-Dependent Mechanism for Stomatal Development.
    Plant Physiol., 2017. 174(2): p. 823-842
    [PMID:28507175]