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

PSME_00049043-RA

Organism

Pseudotsuga menziesii

Taxonomic ID

3357

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Acrogymnospermae; Pinidae; Pinales; Pinaceae; Pseudotsuga

Family

bHLH

Protein Properties

Length: 597aa MW: 64220.7 Da PI: 6.6431

Description

bHLH family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
PSME_00049043-RA	genome	PRS	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	HLH	35.7	1.6e-11	415	457	7	54
HHHHHHHHHHHHHHHHHHCTSCC.C...TTS-STCHHHHHHHHHHHHHH CS HLH 7 erErrRRdriNsafeeLrellPk.askapskKlsKaeiLekAveYIksL 54 ++ErrRR+++N+++ Lr+++Pk + K++ a+iL A+eY+k+L PSME_00049043-RA 415 MAERRRRKKLNDRLYMLRSVVPKiS------KMDRASILGDAIEYLKEL 457 79*******************66......**************98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50888	15.58	408	457	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SuperFamily	SSF47459	1.44E-16	411	476	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Pfam	PF00010	3.7E-9	414	457	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SMART	SM00353	4.4E-14	414	463	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Gene3D	G3DSA:4.10.280.10	5.4E-16	415	471	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
CDD	cd00083	6.24E-13	415	461	No hit	No description
CDD	cd04873	6.34E-7	527	586	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: 597 aa Download sequence Send to blast
MLSRMNVNGG VWGLEDATDL HCNNDENLNL PTFKAMLDAE EWYTSHSNAN NNDITTGSIN 60 NANSHPEGPC FNIDMKDFGC YSSLVNPNPE PPNMLLHHAI NSCSSSPTSI FSLDPSQVQS 120 FLAGASHHHH PQHHHHHVPS LPDVTISSPF QELVCEGLVS SNNASSNSSS NNYLYGGLPG 180 GIFRQLSPSF PSSSPRTTPT HNLSSPHSQM GGSSTPNLSP RIMPTSNLSL SDAGLFSSNN 240 HSTNNSNNNL SNLLGLSSLV SPRIPAPLNL SNPKMLRPLE ICAPVGAQPT LFQKRAALRH 300 TALSPRATTP CIEVLDEESP NGNSNGNVKG KRKMMLLGAD KREEEDADES NDGSGVQYDS 360 DDVGANNNSS YKVDQIGEDG LASGGGTGNA AAGNNINNGS GDKGKKKGLP AKNLMAERRR 420 RKKLNDRLYM LRSVVPKISK MDRASILGDA IEYLKELLQK INDLHNELES TSQGPVLPGT 480 SNFHPLTPTT PSLPCRVKEE CPTSLPSPNA QPARVEVRMR EGHALNIHMF CARRPGLLLS 540 TMRALDGLGL DVQQAVISCF NGFALDVFRA EQAKEGEIAP EEIKAVLLHT ASCHTAI

Sequence ? help Back to Top

Protein Sequence Length: 597 aa Download sequence Send to blast

MLSRMNVNGG VWGLEDATDL HCNNDENLNL PTFKAMLDAE EWYTSHSNAN NNDITTGSIN  60
NANSHPEGPC FNIDMKDFGC YSSLVNPNPE PPNMLLHHAI NSCSSSPTSI FSLDPSQVQS  120
FLAGASHHHH PQHHHHHVPS LPDVTISSPF QELVCEGLVS SNNASSNSSS NNYLYGGLPG  180
GIFRQLSPSF PSSSPRTTPT HNLSSPHSQM GGSSTPNLSP RIMPTSNLSL SDAGLFSSNN  240
HSTNNSNNNL SNLLGLSSLV SPRIPAPLNL SNPKMLRPLE ICAPVGAQPT LFQKRAALRH  300
TALSPRATTP CIEVLDEESP NGNSNGNVKG KRKMMLLGAD KREEEDADES NDGSGVQYDS  360
DDVGANNNSS YKVDQIGEDG LASGGGTGNA AAGNNINNGS GDKGKKKGLP AKNLMAERRR  420
RKKLNDRLYM LRSVVPKISK MDRASILGDA IEYLKELLQK INDLHNELES TSQGPVLPGT  480
SNFHPLTPTT PSLPCRVKEE CPTSLPSPNA QPARVEVRMR EGHALNIHMF CARRPGLLLS  540
TMRALDGLGL DVQQAVISCF NGFALDVFRA EQAKEGEIAP EEIKAVLLHT ASCHTAI

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5gnj_A	5e-14	410	467	6	63	Transcription factor MYC2
5gnj_B	5e-14	410	467	6	63	Transcription factor MYC2
5gnj_E	5e-14	410	467	6	63	Transcription factor MYC2
5gnj_F	5e-14	410	467	6	63	Transcription factor MYC2
5gnj_G	5e-14	410	467	6	63	Transcription factor MYC2
5gnj_I	5e-14	410	467	6	63	Transcription factor MYC2
5gnj_M	5e-14	410	467	6	63	Transcription factor MYC2
5gnj_N	5e-14	410	467	6	63	Transcription factor MYC2
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Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	404	422	KKKGLPAKNLMAERRRRKK
2	416	423	ERRRRKKL

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}.

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	BT116341	0.0	BT116341.1 Picea glauca clone GQ03716_N08 mRNA sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_010250549.1	1e-130	PREDICTED: transcription factor ICE1
Swissprot	Q9LSE2	1e-107	ICE1_ARATH; Transcription factor ICE1
STRING	XP_010250549.1	1e-130	(Nelumbo nucifera)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G26744.4	1e-108	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]