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

Glyma.06G165000.1.p

Common Name

GLYMA_06G165000, ICE4

Organism

Glycine max

Taxonomic ID

3847

Taxonomic Lineage

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

Family

bHLH

Protein Properties

Length: 463aa MW: 51323.7 Da PI: 6.6578

Description

bHLH family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Glyma.06G165000.1.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	HLH	36.1	1.1e-11	278	320	7	54
HHHHHHHHHHHHHHHHHHCTSCC.C...TTS-STCHHHHHHHHHHHHHH CS HLH 7 erErrRRdriNsafeeLrellPk.askapskKlsKaeiLekAveYIksL 54 ++ErrRR+++N+++ Lr+++Pk + K++ a+iL A+eY+k+L Glyma.06G165000.1.p 278 MAERRRRKKLNDRLYMLRSVVPKiS------KMDRASILGDAIEYLKEL 320 79*******************66......**************98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50888	15.764	271	320	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SuperFamily	SSF47459	1.31E-16	274	339	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SMART	SM00353	6.2E-14	277	326	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Pfam	PF00010	2.6E-9	277	320	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Gene3D	G3DSA:4.10.280.10	8.8E-16	278	333	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
CDD	cd00083	2.32E-12	278	324	No hit	No description
CDD	cd04873	9.73E-6	391	451	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: 463 aa Download sequence Send to blast
MMSRINNNGV AWMGEREDEN SRNHNIIPTD TTTTNTGFVE TTNNDLGSLC AFKPMLDVDD 60 EWYNNITNHH HHHHHHHDMT FDPDNLLLHA ATAVDSSSSC SPYFFPPNPK PPFLVNPFDM 120 GFLDPQASSS PSLPLLPEST HFTPPHTTTT AFAGFQSRLQ ESGSSKSLFL RPLESLPPSG 180 AQPTLFQKRA ALRKNMEGSD NNKKKRKEKE KDEEVEDLSF DGSGLNYDSD DLTESNYNNV 240 SEGNTGKNGG VSSNANSTVI TGLDQKGKKK GMPAKNLMAE RRRRKKLNDR LYMLRSVVPK 300 ISKMDRASIL GDAIEYLKEL LQRINDLHNE LESTPVGSSL TPVSSFHPLT PTPPTLPSRI 360 KEELCPSSLP SPNGQPARVE VRLREGRAVN IHMFCARKPS LLLSTMRALD NLGLDIQQAV 420 ISCFNGFAMD IFRAEQCKEG QDVHPEQIKA VLLDSAGYNG MM*

Sequence ? help Back to Top

Protein Sequence Length: 463 aa Download sequence Send to blast

MMSRINNNGV AWMGEREDEN SRNHNIIPTD TTTTNTGFVE TTNNDLGSLC AFKPMLDVDD  60
EWYNNITNHH HHHHHHHDMT FDPDNLLLHA ATAVDSSSSC SPYFFPPNPK PPFLVNPFDM  120
GFLDPQASSS PSLPLLPEST HFTPPHTTTT AFAGFQSRLQ ESGSSKSLFL RPLESLPPSG  180
AQPTLFQKRA ALRKNMEGSD NNKKKRKEKE KDEEVEDLSF DGSGLNYDSD DLTESNYNNV  240
SEGNTGKNGG VSSNANSTVI TGLDQKGKKK GMPAKNLMAE RRRRKKLNDR LYMLRSVVPK  300
ISKMDRASIL GDAIEYLKEL LQRINDLHNE LESTPVGSSL TPVSSFHPLT PTPPTLPSRI  360
KEELCPSSLP SPNGQPARVE VRLREGRAVN IHMFCARKPS LLLSTMRALD NLGLDIQQAV  420
ISCFNGFAMD IFRAEQCKEG QDVHPEQIKA VLLDSAGYNG MM*

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	267	285	KKKGMPAKNLMAERRRRKK
2	279	286	ERRRRKKL

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Gma.7758	0.0	cotyledon\| leaf

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	Glyma.06G165000.1.p

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

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	-

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	FJ393226	0.0	FJ393226.1 Glycine max inducer of CBF expression 4 (ICE4) mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	NP_001238707.1	0.0	inducer of CBF expression 4
Swissprot	Q9LSE2	1e-126	ICE1_ARATH; Transcription factor ICE1
TrEMBL	B8XJY8	0.0	B8XJY8_SOYBN; Inducer of CBF expression 4
STRING	GLYMA06G17330.2	0.0	(Glycine max)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF2414	34	82
Representative plant	OGRP557	16	78

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G26744.4	1e-119	bHLH family protein

Link Out ? help Back to Top
Phytozome	Glyma.06G165000.1.p
Entrez Gene	100217341

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]