PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

PlantRegMap/PlantTFDB v5.0

Plant Transcription Factor Database

Transcription Factor Information

Basic Information | Signature Domain | Sequence |

Basic Information? help Back to Top

TF ID

Lj1g3v3904220.1

Organism

Lotus japonicus

Taxonomic ID

34305

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fabales; Fabaceae; Papilionoideae; Loteae; Lotus

Family

bHLH

Protein Properties

Length: 451aa MW: 49672.8 Da PI: 5.32

Description

bHLH family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Lj1g3v3904220.1	genome	Kazusa	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	HLH	36	1.2e-11	267	309	7	54
HHHHHHHHHHHHHHHHHHCTSCC.C...TTS-STCHHHHHHHHHHHHHH CS HLH 7 erErrRRdriNsafeeLrellPk.askapskKlsKaeiLekAveYIksL 54 ++ErrRR+++N+++ Lr+++Pk + K++ a+iL A++Y+k+L Lj1g3v3904220.1 267 MAERRRRKKLNDRLYMLRSVVPKiS------KMDRASILGDAIDYLKEL 309 79*******************66......**************98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50888	15.682	260	309	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SuperFamily	SSF47459	9.68E-17	263	330	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SMART	SM00353	4.2E-14	266	315	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Pfam	PF00010	2.9E-9	266	309	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
CDD	cd00083	3.24E-13	267	313	No hit	No description
Gene3D	G3DSA:4.10.280.10	1.2E-15	267	322	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
CDD	cd04873	1.76E-6	380	421	No hit	No description

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0046983	Molecular Function	protein dimerization activity

Sequence ? help Back to Top
Protein Sequence Length: 451 aa Download sequence Send to blast
MEGFTLPLPP RPHTTTLQWM EQQQQQQQQQ QQQLVEAKHH NEDDIAIAIA MAGGTPLHFF 60 KPMPESEPDY YNISSAIANT NGVNINNPFA SISNPATTDS FVMHQTLNMD SFNLDPSNSQ 120 GFFNSNSFET GFDSGFFMGG SSNASNSPAL MGFSQGNQMG TLDLSSCSEF PPPGLELEGF 180 GAPRALEAAQ QPTLFQKRRG SVEISRLETV RKKGRKWEDG DVEADFDDSG LNYESDENGN 240 DLNSNATTVS GGDHKGKKKG LPAKNLMAER RRRKKLNDRL YMLRSVVPKI SKMDRASILG 300 DAIDYLKELL QRINDLHNEL ESTPPGSALP PSSSFHPLTP TPQTLPCRVK EELYPGALPS 360 PKNQPVKVEV RVREGRAVNI HMFCTRRPGL LLSTMKALDN LGLDVQQAVI SCFNGFALDV 420 FRAEQCTEGQ DVLPEQIKAV LLDSAGYPGM V

Sequence ? help Back to Top

Protein Sequence Length: 451 aa Download sequence Send to blast

MEGFTLPLPP RPHTTTLQWM EQQQQQQQQQ QQQLVEAKHH NEDDIAIAIA MAGGTPLHFF  60
KPMPESEPDY YNISSAIANT NGVNINNPFA SISNPATTDS FVMHQTLNMD SFNLDPSNSQ  120
GFFNSNSFET GFDSGFFMGG SSNASNSPAL MGFSQGNQMG TLDLSSCSEF PPPGLELEGF  180
GAPRALEAAQ QPTLFQKRRG SVEISRLETV RKKGRKWEDG DVEADFDDSG LNYESDENGN  240
DLNSNATTVS GGDHKGKKKG LPAKNLMAER RRRKKLNDRL YMLRSVVPKI SKMDRASILG  300
DAIDYLKELL QRINDLHNEL ESTPPGSALP PSSSFHPLTP TPQTLPCRVK EELYPGALPS  360
PKNQPVKVEV RVREGRAVNI HMFCTRRPGL LLSTMKALDN LGLDVQQAVI SCFNGFALDV  420
FRAEQCTEGQ DVLPEQIKAV LLDSAGYPGM V

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	256	274	KKKGLPAKNLMAERRRRKK
2	268	275	ERRRRKKL

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Lja.4438	0.0	flower\| pod

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Widely expressed in the whole plant with high expression in leaves and stem. Broad expression within stomatal cell lineages of leaf epidermis. {ECO:0000269\|PubMed:18641265}.

Functional Description ? help Back to Top
Source	Description
UniProt	Transcriptional 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}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Lj1g3v3904220.1

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: By high-salt stress, cold stress and abscisic acid (ABA) treatment.

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	BT144249	0.0	BT144249.1 Lotus japonicus clone JCVI-FLLj-23K22 unknown mRNA.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_004493069.1	1e-159	transcription factor ICE1 isoform X2
Swissprot	Q9LSE2	1e-133	ICE1_ARATH; Transcription factor ICE1
TrEMBL	C0JP29	0.0	C0JP29_LOTJA; Putative basic helix-loop-helix protein BHLH23
STRING	XP_004493068.1	1e-157	(Cicer arietinum)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF2414	34	82

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G26744.4	1e-132	bHLH family protein

Publications ? help Back to Top
Chen Y, et al. Ambient temperature enhanced freezing tolerance of Chrysanthemum dichrum CdICE1 Arabidopsis via miR398. BMC Biol., 2013. 11: p. 121 [PMID:24350981] 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] 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] Lang Z,Zhu J OST1 phosphorylates ICE1 to enhance plant cold tolerance. Sci China Life Sci, 2015. 58(3): p. 317-8 [PMID:25680856] 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] 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] 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] 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] 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] 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] 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] 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] 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] 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] 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] 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] 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] Pal S, et al. TransDetect Identifies a New Regulatory Module Controlling Phosphate Accumulation. Plant Physiol., 2017. 175(2): p. 916-926 [PMID:28827455] 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] 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] 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] Liu Y,Zhou J MAPping Kinase Regulation of ICE1 in Freezing Tolerance. Trends Plant Sci., 2018. 23(2): p. 91-93 [PMID:29248419] 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]