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 Rsa1.0_00020.1_g00015.1
Organism
Raphanus sativus
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: 446aa    MW: 49534.4 Da    PI: 6.5136
Description bHLH family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Rsa1.0_00020.1_g00015.1genomeRGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1HLH36.58.5e-12264306754
                              HHHHHHHHHHHHHHHHHHCTSCC.C...TTS-STCHHHHHHHHHHHHHH CS
                      HLH   7 erErrRRdriNsafeeLrellPk.askapskKlsKaeiLekAveYIksL 54 
                              ++ErrRR+++N+++  Lr+++Pk +      K++ a+iL  A++Y+k+L
  Rsa1.0_00020.1_g00015.1 264 MAERRRRKKLNDRLYMLRSVVPKiS------KMDRASILGDAIDYLKEL 306
                              79*********************66......****************98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5088815.866257306IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
SuperFamilySSF474599.95E-17260326IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
SMARTSM003534.2E-14263312IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
PfamPF000102.0E-9263306IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
CDDcd000836.45E-13264310No hitNo description
Gene3DG3DSA:4.10.280.101.2E-15264319IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
CDDcd048732.63E-6375435No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0010444Biological Processguard mother cell differentiation
GO:0050826Biological Processresponse to freezing
GO:0046983Molecular Functionprotein dimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 446 aa     Download sequence    Send to blast
MNGDGTWLGE ASQAGDNEDE SGTWVRNTEE NWFNNPQPLH HNDLRFSGGL PLNPSENLLL  60
LLQQQSIDTS SPLQHFTLDS APQQQQQEQS FLATKACFTS LLNVPTSNNN NINNNPFDEL  120
GFSSGFLGQT HVNQTPNFSQ LCSPPHFLSS RPENTTGVGN RFTPLEFAGI TNGVFENRAK  180
VLKPLDVLAS PTSQPTLFQK RAAMRQSSSS KTCNSESSSE MRRSSYEREN LDDASTGITD  240
IISDEHNNNN NKGKKKGMPA KNLMAERRRR KKLNDRLYML RSVVPKISKM DRASILGDAI  300
DYLKELLQRI NDLHTELEST APPSSSSLHP LTPTTQTLSY RVKEELCPSS SSFPSPRDQQ  360
ARIEVKLREG KAVNIHMFCG RRPGLLLSTM RALDNLGLDV QQAVVSCFNG FALDVFRAEQ  420
CQEGHDVVPE QIKAVLLDTV GYTGLV
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1253271KKKGMPAKNLMAERRRRKK
2265272ERRRRKKL
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
PlantRegMapRsa1.0_00020.1_g00015.1
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_018450994.10.0PREDICTED: transcription factor SCREAM2-like
RefseqXP_018450995.10.0PREDICTED: transcription factor SCREAM2-like
RefseqXP_018451007.10.0PREDICTED: transcription factor SCREAM2-like
RefseqXP_018451009.10.0PREDICTED: transcription factor SCREAM2-like
SwissprotQ9LPW30.0SCRM2_ARATH; Transcription factor SCREAM2
TrEMBLA0A078HA670.0A0A078HA67_BRANA; BnaC03g57010D protein
TrEMBLA0A0D3DPE40.0A0A0D3DPE4_BRAOL; Uncharacterized protein
TrEMBLA0A3P6G8D90.0A0A3P6G8D9_BRAOL; Uncharacterized protein
STRINGBo8g065080.10.0(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-153bHLH 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]