PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Nicotianoideae; Nicotianeae; Nicotiana

Family

bHLH

Protein Properties

Length: 678aa MW: 74343 Da PI: 6.9016

Description

bHLH family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Niben101Scf06621g02010.1	genome	BTI	-

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	HLH	20.2	1.1e-06	347	371	7	30
HHHHHHHHHHHHHHHHHHCTSCC.C CS HLH 7 erErrRRdriNsafeeLrellPk.a 30 ++ErrRR+++N+++ Lr+++Pk + Niben101Scf06621g02010.1 347 MAERRRRKKLNDRLYMLRSVVPKiS 371 79********************955 PP
2	HLH	35.4	1.9e-11	490	532	7	54
HHHHHHHHHHHHHHHHHHCTSCC.C...TTS-STCHHHHHHHHHHHHHH CS HLH 7 erErrRRdriNsafeeLrellPk.askapskKlsKaeiLekAveYIksL 54 ++ErrRR+++N+++ Lr+++Pk + K++ a+iL A+eY+k+L Niben101Scf06621g02010.1 490 MAERRRRKKLNDRLYMLRSVVPKiS------KMDRASILGDAIEYLKEL 532 79*******************66......**************98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF47459	1.3E-6	338	372	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
PROSITE profile	PS50888	8.975	340	393	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SMART	SM00353	0.56	346	388	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
CDD	cd00083	1.78E-4	347	372	No hit	No description
Gene3D	G3DSA:4.10.280.10	5.5E-6	347	371	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
PROSITE profile	PS50888	15.58	483	532	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SuperFamily	SSF47459	2.22E-16	486	551	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SMART	SM00353	4.4E-14	489	538	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Pfam	PF00010	4.3E-9	489	532	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Gene3D	G3DSA:4.10.280.10	6.3E-16	490	545	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
CDD	cd00083	6.16E-12	490	536	No hit	No description
CDD	cd04873	1.41E-7	607	667	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: 678 aa Download sequence Send to blast
MLSHSMGWMD GKEDEETGTW VHQNNNENNH NNNSRGEMEM GALSTFKSML DAEDVDWYNM 60 ATNNNNNNSA GAMQFGSNFT EAENNLLLQP VDSSSSCSPS SAFNNLDPSQ VHFFLPQKSN 120 IPPLLSALNN PLENGFDLGC SEKGFLETHQ NLSVLNKTGM FTGGFQDLSS QNQMGHNNLS 180 SFTQFPCTNL LQMPQTSSGF GPLVGFGDNS ANDNSLFLNR SKLLKPLDNF ASIGAQPTLF 240 QKRAALRKNL ANNSSGNLGI LGNEIGQTSS NKEVNEMNER KRKCSSNLDE LEDVSLDGST 300 LNYDSDDLIE KVEDSVKNGG NSSNATSTVT GVDQKGKKKG LPAKNLMAER RRRKKLNDRL 360 YMLRSVVPKI SKHXSIGAQP TLFQKRAALR KNLANNSSGN LGILGNEIGQ TSSNKEVNEM 420 NERKRKCSSN LDELEDVSLD GSTLNYDSDD LIEKVEDSVK NGGNSSNATS TVTGVDQKGK 480 KKGLPAKNLM AERRRRKKLN DRLYMLRSVV PKISKMDRAS ILGDAIEYLK ELLQKINDLH 540 NELESTPPGS SLTPTTSFYP LTPTATALPG RIKEELCPSS FASPLSSPTG QPPRVEVRAR 600 EGRAVNIHMF CSRRPGLLLS TMRALDNLGL DIQQAVISCF NGFALDIFRA EQSKEGQDIH 660 PEQIKAVLLD SAGFHGMI

Sequence ? help Back to Top

Protein Sequence Length: 678 aa Download sequence Send to blast

MLSHSMGWMD GKEDEETGTW VHQNNNENNH NNNSRGEMEM GALSTFKSML DAEDVDWYNM  60
ATNNNNNNSA GAMQFGSNFT EAENNLLLQP VDSSSSCSPS SAFNNLDPSQ VHFFLPQKSN  120
IPPLLSALNN PLENGFDLGC SEKGFLETHQ NLSVLNKTGM FTGGFQDLSS QNQMGHNNLS  180
SFTQFPCTNL LQMPQTSSGF GPLVGFGDNS ANDNSLFLNR SKLLKPLDNF ASIGAQPTLF  240
QKRAALRKNL ANNSSGNLGI LGNEIGQTSS NKEVNEMNER KRKCSSNLDE LEDVSLDGST  300
LNYDSDDLIE KVEDSVKNGG NSSNATSTVT GVDQKGKKKG LPAKNLMAER RRRKKLNDRL  360
YMLRSVVPKI SKHXSIGAQP TLFQKRAALR KNLANNSSGN LGILGNEIGQ TSSNKEVNEM  420
NERKRKCSSN LDELEDVSLD GSTLNYDSDD LIEKVEDSVK NGGNSSNATS TVTGVDQKGK  480
KKGLPAKNLM AERRRRKKLN DRLYMLRSVV PKISKMDRAS ILGDAIEYLK ELLQKINDLH  540
NELESTPPGS SLTPTTSFYP LTPTATALPG RIKEELCPSS FASPLSSPTG QPPRVEVRAR  600
EGRAVNIHMF CSRRPGLLLS TMRALDNLGL DIQQAVISCF NGFALDIFRA EQSKEGQDIH  660
PEQIKAVLLD SAGFHGMI

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5gnj_A	6e-13	485	536	6	57	Transcription factor MYC2
5gnj_B	6e-13	485	536	6	57	Transcription factor MYC2
5gnj_E	6e-13	485	536	6	57	Transcription factor MYC2
5gnj_F	6e-13	485	536	6	57	Transcription factor MYC2
5gnj_G	6e-13	485	536	6	57	Transcription factor MYC2
5gnj_I	6e-13	485	536	6	57	Transcription factor MYC2
5gnj_M	6e-13	485	536	6	57	Transcription factor MYC2
5gnj_N	6e-13	485	536	6	57	Transcription factor MYC2
Search in ModeBase

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	479	497	KKKGLPAKNLMAERRRRKK
2	491	498	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_009769541.1	0.0	PREDICTED: transcription factor ICE1-like
Refseq	XP_016476813.1	0.0	PREDICTED: transcription factor ICE1-like
Swissprot	Q9LSE2	1e-112	ICE1_ARATH; Transcription factor ICE1
TrEMBL	A0A1S4AK66	0.0	A0A1S4AK66_TOBAC; transcription factor ICE1-like
TrEMBL	A0A1U7VX47	0.0	A0A1U7VX47_NICSY; transcription factor ICE1-like
STRING	XP_009769541.1	0.0	(Nicotiana sylvestris)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Asterids	OGEA2703	24	52

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G26744.4	3e-97	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]