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

Medtr3g498695.1

Common Name

MTR_3g498695

Organism

Medicago truncatula

Taxonomic ID

3880

Taxonomic Lineage

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

Family

bHLH

Protein Properties

Length: 486aa MW: 53390 Da PI: 6.3798

Description

bHLH family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Medtr3g498695.1	genome	Mt	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	301	343	7	54
HHHHHHHHHHHHHHHHHHCTSCC.C...TTS-STCHHHHHHHHHHHHHH CS HLH 7 erErrRRdriNsafeeLrellPk.askapskKlsKaeiLekAveYIksL 54 ++ErrRR+++N+++ Lr+++Pk + K++ a+iL A+eY+k+L Medtr3g498695.1 301 MAERRRRKKLNDRLYMLRSVVPKiS------KMDRASILGDAIEYLKEL 343 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	294	343	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SuperFamily	SSF47459	1.44E-16	297	361	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Pfam	PF00010	2.8E-9	300	343	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SMART	SM00353	6.2E-14	300	349	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
CDD	cd00083	1.74E-12	301	347	No hit	No description
Gene3D	G3DSA:4.10.280.10	7.8E-16	301	356	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
CDD	cd04873	7.57E-7	414	474	No hit	No description

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0010440	Biological Process	stomatal lineage progression
GO:0045893	Biological Process	positive regulation of transcription, DNA-templated
GO:0050826	Biological Process	response to freezing
GO:0005634	Cellular Component	nucleus
GO:0003677	Molecular Function	DNA binding
GO:0046983	Molecular Function	protein dimerization activity

Sequence ? help Back to Top
Protein Sequence Length: 486 aa Download sequence Send to blast
MLSRMNSNNN GWMEEREDEN NTTNPNTPSS ASPAFIHNHN NKQQDFSSFI KPMLGEIDED 60 DEQWYIRDMS FSSAPNLDNV LLHTINDSVS SSCSPSSSVF NTLLHPEPTP SNSNHLQYFL 120 PPQNHKPINP FDLPCELGFL DHQASTMAAS SFMGSFVDFA SKTPLTATAT TTQLLSLPHL 180 PQINNAFMGF QNSQEGSGKS LFLRPLDSLP SSGTQPTLFQ KRAALRKNMG KCEIGEGSDK 240 KRKFSGGDEI DDLSFDGSGL NYDSDDLTES NGKNIGNGSN GNSTVTDQKG KKKGMPAKNL 300 MAERRRRKKL NDRLYMLRSV VPKISKMDRA SILGDAIEYL KELLQRINDL HNELESTPAG 360 SSLTPASSLH PLTPTPSSLP GRIKEELCPS SLPSPNGQPA RVEVRLREGR AVNIHMFCTR 420 KPGLLLSTMR ALDNLGLDIQ QAVISCFNGF AMDIFRAEQC KEGQDVHPEQ IKAVLLDSAG 480 FNGMI*

Sequence ? help Back to Top

Protein Sequence Length: 486 aa Download sequence Send to blast

MLSRMNSNNN GWMEEREDEN NTTNPNTPSS ASPAFIHNHN NKQQDFSSFI KPMLGEIDED  60
DEQWYIRDMS FSSAPNLDNV LLHTINDSVS SSCSPSSSVF NTLLHPEPTP SNSNHLQYFL  120
PPQNHKPINP FDLPCELGFL DHQASTMAAS SFMGSFVDFA SKTPLTATAT TTQLLSLPHL  180
PQINNAFMGF QNSQEGSGKS LFLRPLDSLP SSGTQPTLFQ KRAALRKNMG KCEIGEGSDK  240
KRKFSGGDEI DDLSFDGSGL NYDSDDLTES NGKNIGNGSN GNSTVTDQKG KKKGMPAKNL  300
MAERRRRKKL NDRLYMLRSV VPKISKMDRA SILGDAIEYL KELLQRINDL HNELESTPAG  360
SSLTPASSLH PLTPTPSSLP GRIKEELCPS SLPSPNGQPA RVEVRLREGR AVNIHMFCTR  420
KPGLLLSTMR ALDNLGLDIQ QAVISCFNGF AMDIFRAEQC KEGQDVHPEQ IKAVLLDSAG  480
FNGMI*

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	290	308	KKKGMPAKNLMAERRRRKK
2	302	309	ERRRRKKL

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	Medtr3g498695.1

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.
GenBank	HM989928	0.0	HM989928.1 Glycine max ICEd mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_013461649.1	0.0	transcription factor ICE1 isoform X1
Swissprot	Q9LSE2	1e-131	ICE1_ARATH; Transcription factor ICE1
TrEMBL	A0A072V0Y6	0.0	A0A072V0Y6_MEDTR; BHLH transcriptional factor
STRING	XP_004501748.1	0.0	(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-120	bHLH family protein

Link Out ? help Back to Top
Phytozome	Medtr3g498695.1
Entrez Gene	25491140

Publications ? help Back to Top
Young ND, et al. The Medicago genome provides insight into the evolution of rhizobial symbioses. Nature, 2011. 480(7378): p. 520-4 [PMID:22089132] 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]