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

Pavir.8KG254600.1.p

Organism

Panicum virgatum

Taxonomic ID

38727

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Panicodae; Paniceae; Panicinae; Panicum

Family

bHLH

Protein Properties

Length: 529aa MW: 54349.4 Da PI: 4.9228

Description

bHLH family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Pavir.8KG254600.1.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	HLH	35.9	1.4e-11	343	385	7	54
HHHHHHHHHHHHHHHHHHCTSCC.C...TTS-STCHHHHHHHHHHHHHH CS HLH 7 erErrRRdriNsafeeLrellPk.askapskKlsKaeiLekAveYIksL 54 ++ErrRR+++N+++ Lr+++Pk + K++ a+iL A+eY+k+L Pavir.8KG254600.1.p 343 MAERRRRKKLNDRLYMLRSVVPKiS------KMDRASILGDAIEYLKEL 385 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	336	385	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SuperFamily	SSF47459	5.63E-17	339	411	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Pfam	PF00010	3.2E-9	342	385	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SMART	SM00353	4.4E-14	342	391	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
CDD	cd00083	4.93E-13	343	389	No hit	No description
Gene3D	G3DSA:4.10.280.10	3.3E-16	343	397	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
CDD	cd04873	0.00612	457	498	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: 529 aa Download sequence Send to blast
MLPPFGNPLW TPDGCGAQQQ DAPPPTPMML GATQPLGHEP QQNLLSLAQA SADLRGGVFS 60 APPVVDDEWY FNSAAGAGAQ GSLLLAPPGE GAPGLLSLGA ASSQMFSLFN MGGGGAPYDL 120 HGFDLGLSGG GGGVTGGELV SFAGAGSVSN SAPLPLIPAG NAGFLGSFGG FGTAPTQMPE 180 FGGLGGFDMF NNGAGAGAGC SAPAPPASAS LAAPFSARGK AAVLRPLEIF PPVGVQPTLF 240 QKRALRRNAG EEDDDKKRKA EALAAAAGAS SAGGGDMVLE DADDDDGGSI DGSGLNYDSE 300 DARGVEESGK KDDKDSNANS TVTAGGAGDG KGKRKGMPAK NLMAERRRRK KLNDRLYMLR 360 SVVPKISKMD RASILGDAIE YLKELLQKIN DLQNELESPP STASLPPTPT SFHPLTPTLP 420 TLPSRVKEEL GTSALPSPTS QQPRVEVRMR EGRAVNIHMF CARRPGLLLN AMKAIEGLGL 480 DVQQAVASCF NGFTLDVFKA ELCKDGPGLL PEEIKTVLMQ STGFHGVM*

Sequence ? help Back to Top

Protein Sequence Length: 529 aa Download sequence Send to blast

MLPPFGNPLW TPDGCGAQQQ DAPPPTPMML GATQPLGHEP QQNLLSLAQA SADLRGGVFS  60
APPVVDDEWY FNSAAGAGAQ GSLLLAPPGE GAPGLLSLGA ASSQMFSLFN MGGGGAPYDL  120
HGFDLGLSGG GGGVTGGELV SFAGAGSVSN SAPLPLIPAG NAGFLGSFGG FGTAPTQMPE  180
FGGLGGFDMF NNGAGAGAGC SAPAPPASAS LAAPFSARGK AAVLRPLEIF PPVGVQPTLF  240
QKRALRRNAG EEDDDKKRKA EALAAAAGAS SAGGGDMVLE DADDDDGGSI DGSGLNYDSE  300
DARGVEESGK KDDKDSNANS TVTAGGAGDG KGKRKGMPAK NLMAERRRRK KLNDRLYMLR  360
SVVPKISKMD RASILGDAIE YLKELLQKIN DLQNELESPP STASLPPTPT SFHPLTPTLP  420
TLPSRVKEEL GTSALPSPTS QQPRVEVRMR EGRAVNIHMF CARRPGLLLN AMKAIEGLGL  480
DVQQAVASCF NGFTLDVFKA ELCKDGPGLL PEEIKTVLMQ STGFHGVM*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5gnj_A	8e-15	338	395	6	63	Transcription factor MYC2
5gnj_B	8e-15	338	395	6	63	Transcription factor MYC2
5gnj_E	8e-15	338	395	6	63	Transcription factor MYC2
5gnj_F	8e-15	338	395	6	63	Transcription factor MYC2
5gnj_G	8e-15	338	395	6	63	Transcription factor MYC2
5gnj_I	8e-15	338	395	6	63	Transcription factor MYC2
5gnj_M	8e-15	338	395	6	63	Transcription factor MYC2
5gnj_N	8e-15	338	395	6	63	Transcription factor MYC2
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Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	332	350	KRKGMPAKNLMAERRRRKK
2	344	351	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	Pavir.8KG254600.1.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 -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_025826991.1	0.0	transcription factor ICE1-like
Swissprot	Q9LSE2	1e-108	ICE1_ARATH; Transcription factor ICE1
TrEMBL	A0A3L6Q0U0	0.0	A0A3L6Q0U0_PANMI; Transcription factor SCREAM2-like
STRING	Pavir.Hb00982.1.p	0.0	(Panicum virgatum)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP1646	37	101

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G26744.4	2e-84	bHLH family protein

Link Out ? help Back to Top
Phytozome	Pavir.8KG254600.1.p

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]