PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Previous version: v3.0 v4.0
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Sme2.5_00008.1_g00032.1
Organism
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Solanoideae; Solaneae; Solanum
Family bHLH
Protein Properties Length: 528aa    MW: 57511.1 Da    PI: 5.2509
Description bHLH family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Sme2.5_00008.1_g00032.1genomeEGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1HLH34.14.9e-11340382754
                              HHHHHHHHHHHHHHHHHHCTSCC.C...TTS-STCHHHHHHHHHHHHHH CS
                      HLH   7 erErrRRdriNsafeeLrellPk.askapskKlsKaeiLekAveYIksL 54 
                              ++ErrRR+++N+++  Lr+++P  +      K++ a+iL  A+eY+k+L
  Sme2.5_00008.1_g00032.1 340 MAERRRRKKLNDRLYMLRSVVPRiS------KMDRASILGDAIEYLKEL 382
                              79*********************66......****************98 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5088815.491333382IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
SuperFamilySSF474591.7E-16336400IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
SMARTSM003536.2E-14339388IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
PfamPF000101.1E-8339382IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
Gene3DG3DSA:4.10.280.105.8E-16340396IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
CDDcd000838.58E-13340386No 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: 528 aa     Download sequence    Send to blast
MLSRVNNTVW DVEGKQGGGG EGEETFTNKE NNTDGGVENK EDMELDVDWY MNSNNNMQNH  60
TESICFTQNF TELAENSLFL QTVPVDSSSS CSPSSVSVFN NLDPSQVHYF LTQKAINNNP  120
LDYGFNLGCE NGFLEAQGMG GLNKGGFLLT GGGFHDFSSQ NQMGNPNLNS FTQYPSSHLP  180
QISSAGFSPL GFADGSANEN PLLLNRSKLL KPLDNFASIG AQPTLFQKRA ALRKNLANNG  240
GGSLGDFGGE IGQSSINGEG YDKKKGEGER KRKWVNVEEL DDLSFDGCTL SYDSDDLTEN  300
VTNKVDDSVK NGGNSSNATS TVTGGNQKGK KKGLPAKNLM AERRRRKKLN DRLYMLRSVV  360
PRISKMDRAS ILGDAIEYLK ELLQKINDLH NELESTPPSS SLTQTTSFYP LTPTGPALPV  420
RIKEELYPSS FASPLSSPTG QPARVEVRAR DGRAVNIHMF CSRKPGLLLS TMKALDNLGL  480
DIQQAVISCF NGFALDIFRA EQCKEGQDFH PDQIKAVLLD SAGCHGVI
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5gnj_A9e-14335392663Transcription factor MYC2
5gnj_B9e-14335392663Transcription factor MYC2
5gnj_E9e-14335392663Transcription factor MYC2
5gnj_F9e-14335392663Transcription factor MYC2
5gnj_G9e-14335392663Transcription factor MYC2
5gnj_I9e-14335392663Transcription factor MYC2
5gnj_M9e-14335392663Transcription factor MYC2
5gnj_N9e-14335392663Transcription factor MYC2
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1329347KKKGLPAKNLMAERRRRKK
2341348ERRRRKKL
Functional Description ? help Back to Top
Source Description
UniProtTranscriptional activator that regulates the cold-induced transcription of CBF/DREB1 genes. Binds specifically to the MYC recognition sites (5'-CANNTG-3') found in the CBF3/DREB1A promoter. Mediates stomatal differentiation in the epidermis probably by controlling successive roles of SPCH, MUTE, and FAMA. Functions as a dimer with SPCH during stomatal initiation (PubMed:18641265, PubMed:28507175). {ECO:0000269|PubMed:17416732, ECO:0000269|PubMed:18641265, ECO:0000269|PubMed:28507175}.
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By high-salt stress, cold stress and abscisic acid (ABA) treatment.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankJX6251390.0JX625139.1 Solanum lycopersicum inducer of CBF expression 1 (ICE1a) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006365416.10.0PREDICTED: transcription factor ICE1-like
SwissprotQ9LSE21e-120ICE1_ARATH; Transcription factor ICE1
TrEMBLM1CT370.0M1CT37_SOLTU; Uncharacterized protein
STRINGPGSC0003DMT4000740750.0(Solanum tuberosum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA27032452
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G26744.41e-104bHLH family protein
Publications ? help Back to Top
  1. Chen Y, et al.
    Ambient temperature enhanced freezing tolerance of Chrysanthemum dichrum CdICE1 Arabidopsis via miR398.
    BMC Biol., 2013. 11: p. 121
    [PMID:24350981]
  2. Xu F, et al.
    Increased drought tolerance through the suppression of ESKMO1 gene and overexpression of CBF-related genes in Arabidopsis.
    PLoS ONE, 2014. 9(9): p. e106509
    [PMID:25184213]
  3. Jiang W,Wu J,Zhang Y,Yin L,Lu J
    Isolation of a WRKY30 gene from Muscadinia rotundifolia (Michx) and validation of its function under biotic and abiotic stresses.
    Protoplasma, 2015. 252(5): p. 1361-74
    [PMID:25643917]
  4. Lang Z,Zhu J
    OST1 phosphorylates ICE1 to enhance plant cold tolerance.
    Sci China Life Sci, 2015. 58(3): p. 317-8
    [PMID:25680856]
  5. Juan JX, et al.
    Agrobacterium-mediated transformation of tomato with the ICE1 transcription factor gene.
    Genet. Mol. Res., 2015. 14(1): p. 597-608
    [PMID:25729995]
  6. 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]
  7. Horst RJ, et al.
    Molecular Framework of a Regulatory Circuit Initiating Two-Dimensional Spatial Patterning of Stomatal Lineage.
    PLoS Genet., 2015. 11(7): p. e1005374
    [PMID:26203655]
  8. Lee JH,Jung JH,Park CM
    INDUCER OF CBF EXPRESSION 1 integrates cold signals into FLOWERING LOCUS C-mediated flowering pathways in Arabidopsis.
    Plant J., 2015. 84(1): p. 29-40
    [PMID:26248809]
  9. Wang CL,Zhang SC,Qi SD,Zheng CC,Wu CA
    Delayed germination of Arabidopsis seeds under chilling stress by overexpressing an abiotic stress inducible GhTPS11.
    Gene, 2016. 575(2 Pt 1): p. 206-12
    [PMID:26325072]
  10. Lee JH,Park CM
    Integration of photoperiod and cold temperature signals into flowering genetic pathways in Arabidopsis.
    Plant Signal Behav, 2015. 10(11): p. e1089373
    [PMID:26430754]
  11. Su F, et al.
    Burkholderia phytofirmans PsJN reduces impact of freezing temperatures on photosynthesis in Arabidopsis thaliana.
    Front Plant Sci, 2015. 6: p. 810
    [PMID:26483823]
  12. Klermund C, et al.
    LLM-Domain B-GATA Transcription Factors Promote Stomatal Development Downstream of Light Signaling Pathways in Arabidopsis thaliana Hypocotyls.
    Plant Cell, 2016. 28(3): p. 646-60
    [PMID:26917680]
  13. Chen L, et al.
    NRPB3, the third largest subunit of RNA polymerase II, is essential for stomatal patterning and differentiation in Arabidopsis.
    Development, 2016. 143(9): p. 1600-11
    [PMID:26989174]
  14. Lu X, et al.
    A novel Zea mays ssp. mexicana L. MYC-type ICE-like transcription factor gene ZmmICE1, enhances freezing tolerance in transgenic Arabidopsis thaliana.
    Plant Physiol. Biochem., 2017. 113: p. 78-88
    [PMID:28189052]
  15. Deng C,Ye H,Fan M,Pu T,Yan J
    The rice transcription factors OsICE confer enhanced cold tolerance in transgenic Arabidopsis.
    Plant Signal Behav, 2017. 12(5): p. e1316442
    [PMID:28414264]
  16. 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]
  17. Kim SH, et al.
    Phosphorylation of the transcriptional repressor MYB15 by mitogen-activated protein kinase 6 is required for freezing tolerance in Arabidopsis.
    Nucleic Acids Res., 2017. 45(11): p. 6613-6627
    [PMID:28510716]
  18. Pal S, et al.
    TransDetect Identifies a New Regulatory Module Controlling Phosphate Accumulation.
    Plant Physiol., 2017. 175(2): p. 916-926
    [PMID:28827455]
  19. Zhao C, et al.
    MAP Kinase Cascades Regulate the Cold Response by Modulating ICE1 Protein Stability.
    Dev. Cell, 2017. 43(5): p. 618-629.e5
    [PMID:29056551]
  20. Li H, et al.
    MPK3- and MPK6-Mediated ICE1 Phosphorylation Negatively Regulates ICE1 Stability and Freezing Tolerance in Arabidopsis.
    Dev. Cell, 2017. 43(5): p. 630-642.e4
    [PMID:29056553]
  21. Lee JH,Jung JH,Park CM
    Light Inhibits COP1-Mediated Degradation of ICE Transcription Factors to Induce Stomatal Development in Arabidopsis.
    Plant Cell, 2017. 29(11): p. 2817-2830
    [PMID:29070509]
  22. Liu Y,Zhou J
    MAPping Kinase Regulation of ICE1 in Freezing Tolerance.
    Trends Plant Sci., 2018. 23(2): p. 91-93
    [PMID:29248419]
  23. Xie H, et al.
    Variation in ICE1 Methylation Primarily Determines Phenotypic Variation in Freezing Tolerance in Arabidopsis thaliana.
    Plant Cell Physiol., 2019. 60(1): p. 152-165
    [PMID:30295898]