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

NNU_003217-RA

Organism

Nelumbo nucifera

Taxonomic ID

4432

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; stem eudicotyledons; Proteales; Nelumbonaceae; Nelumbo

Family

bHLH

Protein Properties

Length: 552aa MW: 59653.7 Da PI: 5.0843

Description

bHLH family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
NNU_003217-RA	genome	CAS	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	HLH	35.8	1.4e-11	368	410	7	54
HHHHHHHHHHHHHHHHHHCTSCC.C...TTS-STCHHHHHHHHHHHHHH CS HLH 7 erErrRRdriNsafeeLrellPk.askapskKlsKaeiLekAveYIksL 54 ++ErrRR+++N+++ Lr+++Pk + K++ a+iL A+eY+k+L NNU_003217-RA 368 MAERRRRKKLNDRLYMLRSVVPKiS------KMDRASILGDAIEYLKEL 410 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	361	410	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SuperFamily	SSF47459	1.44E-16	364	430	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Pfam	PF00010	3.3E-9	367	410	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SMART	SM00353	6.2E-14	367	416	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Gene3D	G3DSA:4.10.280.10	9.9E-16	368	423	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
CDD	cd00083	6.48E-13	368	414	No hit	No description
CDD	cd04873	1.61E-6	481	522	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: 552 aa Download sequence Send to blast
MLSRVNGVNS VVWMDEQGED EDAVSWTRSN GGGDNKDDMG SLSTFKSMLG DDWYVNGNGN 60 PSHHDFQSVQ NHPEIKDIAF PSNPTAAESL LLQPVDSSSS CSPSSVFNLD PSQVQPFLPP 120 KSCLSSLLNV VCSNPFDNGF DLGCDPGFLA PLHGNQTSSS SVLMSRGAGV LNGFGGLSSQ 180 GQMDTPDFSS NSQFPATRLL PLGGDSTTVG TGFNTTDFGG FEGSANNLFL NRSKVLRPLE 240 IFPPVGAQPT LFQKRAALRQ NSAAADKGGN LGFFGLEGGQ HSARVEGSKG KTELEEEQEK 300 RRKNNEEDEV EEASVDGSGL NYDSDEAMEN NKVEDHAKNA GNNSNTISTV TGIDQKGKKK 360 GLPAKNLMAE RRRRKKLNDR LYMLRSVVPK ISKMDRASIL GDAIEYLKEL LQRINDLHNE 420 LESTPPGSSL PPSTSFHPLT PTLPTLPCRV KEELCPSSLP SPNSQPARVE VRVREGRAVN 480 IHMFCARRPG LLLSTMKALD TLGLDIQQAV ISCFNGFALD VFRAEQCKEG PDVPPEDIKA 540 VLLNSAGFHS MI

Sequence ? help Back to Top

Protein Sequence Length: 552 aa Download sequence Send to blast

MLSRVNGVNS VVWMDEQGED EDAVSWTRSN GGGDNKDDMG SLSTFKSMLG DDWYVNGNGN  60
PSHHDFQSVQ NHPEIKDIAF PSNPTAAESL LLQPVDSSSS CSPSSVFNLD PSQVQPFLPP  120
KSCLSSLLNV VCSNPFDNGF DLGCDPGFLA PLHGNQTSSS SVLMSRGAGV LNGFGGLSSQ  180
GQMDTPDFSS NSQFPATRLL PLGGDSTTVG TGFNTTDFGG FEGSANNLFL NRSKVLRPLE  240
IFPPVGAQPT LFQKRAALRQ NSAAADKGGN LGFFGLEGGQ HSARVEGSKG KTELEEEQEK  300
RRKNNEEDEV EEASVDGSGL NYDSDEAMEN NKVEDHAKNA GNNSNTISTV TGIDQKGKKK  360
GLPAKNLMAE RRRRKKLNDR LYMLRSVVPK ISKMDRASIL GDAIEYLKEL LQRINDLHNE  420
LESTPPGSSL PPSTSFHPLT PTLPTLPCRV KEELCPSSLP SPNSQPARVE VRVREGRAVN  480
IHMFCARRPG LLLSTMKALD TLGLDIQQAV ISCFNGFALD VFRAEQCKEG PDVPPEDIKA  540
VLLNSAGFHS MI

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	357	375	KKKGLPAKNLMAERRRRKK
2	369	376	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.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_010249206.1	0.0	PREDICTED: transcription factor ICE1-like
Swissprot	Q9LSE2	1e-151	ICE1_ARATH; Transcription factor ICE1
TrEMBL	A0A1U7Z9I3	0.0	A0A1U7Z9I3_NELNU; transcription factor ICE1-like
STRING	XP_010249206.1	0.0	(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]