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 RrC1987_p2
Organism
Raphanus raphanistrum
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Raphanus
Family bHLH
Protein Properties Length: 430aa    MW: 47918.9 Da    PI: 5.6935
Description bHLH family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC1987_p2genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1HLH36.58.5e-12252294754
                 HHHHHHHHHHHHHHHHHHCTSCC.C...TTS-STCHHHHHHHHHHHHHH CS
         HLH   7 erErrRRdriNsafeeLrellPk.askapskKlsKaeiLekAveYIksL 54 
                 ++ErrRR+++N+++  Lr+++Pk +      K++ a+iL  Av+Y+k+L
  RrC1987_p2 252 MAERRRRKKLNDRLYMLRSVVPKiS------KMDRASILGDAVDYLKEL 294
                 79*********************66......****************98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5088815.777245294IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
SuperFamilySSF474592.88E-16248313IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
SMARTSM003533.2E-14251300IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
PfamPF000101.8E-9251294IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
CDDcd000839.38E-13252299No hitNo description
Gene3DG3DSA:4.10.280.102.1E-15252308IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
CDDcd048735.13E-8359419No 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: 430 aa     Download sequence    Send to blast
MNGHDGERFQ VGYNDEPVPW VRNPEENWFS NPQDASQNEF GFNSGGFPLN PSENLLLLIQ  60
QSIDSSSPLQ HFTLDATTPH QQQQESFLAT KACMASLLNV PPDNNNNNPL DDFGFDSPLF  120
LGQLHRTPNS MSFPVMTSSP PDFLLPSRSC NVFSPLEFEG VLENRAKVLK PLEVSPSSGS  180
QPTLFQKRAA LRQSPSSKMC NSDSSSSPEI RRSYEREVVD ETSTGLNYES DEHNNNNNKG  240
MKKKGMPAKN LMAERRRRKK LNDRLYMLRS VVPKISKMDR ASILGDAVDY LKELLQRISD  300
LHTELESTPS SSSGLTLPSP QTLPYRVKEE LCPSSSFPSP KGQQARIEVN LREGKAVNIH  360
MFCGRRPGLL LSTMRALDDL GLDVQQAVIS CFNGFALDVF RAEQCQEGHE VLPEQIKAVL  420
LDTAGYTGLL
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1241259KKKGMPAKNLMAERRRRKK
2253260ERRRRKKL
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}.
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_018451374.10.0PREDICTED: transcription factor SCREAM2-like
SwissprotQ9LPW30.0SCRM2_ARATH; Transcription factor SCREAM2
TrEMBLA0A3P6F2G00.0A0A3P6F2G0_BRAOL; Uncharacterized protein
STRINGBo5g016510.10.0(Brassica oleracea)
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
AT1G12860.11e-149bHLH 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]