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

Thhalv10002558m

Common Name

EUTSA_v10002558mg

Organism

Eutrema salsugineum

Taxonomic ID

72664

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Eutremeae; Eutrema

Family

bHLH

Protein Properties

Length: 398aa MW: 44635.9 Da PI: 4.835

Description

bHLH family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Thhalv10002558m	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	HLH	38.1	2.7e-12	189	240	1	55
CHHHHHHHHHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS HLH 1 rrrahnerErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55 +r++h ++Er+RR+++N+ + Lr+l+P + + ++ + a+i A+e++++L+ Thhalv10002558m 189 QRMTHIAVERNRRKQMNEHLRVLRSLMPGS---YVQRGDQASIIGGAIEFVRELE 240 79**************************...9***************9995 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:4.10.280.10	1.4E-13	187	243	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
CDD	cd00083	1.73E-12	187	244	No hit	No description
PROSITE profile	PS50888	15.428	188	239	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SuperFamily	SSF47459	2.75E-16	188	253	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Pfam	PF00010	1.2E-9	189	240	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SMART	SM00353	3.4E-9	194	245	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
CDD	cd04873	0.002	323	387	No hit	No description

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0010377	Biological Process	guard cell fate commitment
GO:0045597	Biological Process	positive regulation of cell differentiation
GO:0045893	Biological Process	positive regulation of transcription, DNA-templated
GO:0051782	Biological Process	negative regulation of cell division
GO:0005634	Cellular Component	nucleus
GO:0046983	Molecular Function	protein dimerization activity

Sequence ? help Back to Top
Protein Sequence Length: 398 aa Download sequence Send to blast
MDKDYSAPNF LGESSGGNDD NNSGMIDYMF NRNLQQQKQS MPQQQQLSPS GFGATPTFDK 60 MSFADVMQFA DFGPKLALNQ TRNQDDQETG MDPVYFLKFP VLNDKIEDHN QTHHLMSQEG 120 GECEGNIGNV FLEEKENQDD ENDNNSVQLR FIGEQEDEDR ENKNVTTKEV KSKRKRARTS 180 KTSEEVESQR MTHIAVERNR RKQMNEHLRV LRSLMPGSYV QRGDQASIIG GAIEFVRELE 240 QLLQCLESQK RRRILGETGS RQIGDMNTTT TSSSPITSVA NPLIITGSVT ELEGGGGGLR 300 EETAEKKSCL ADVEVKLLGF DAMIKILSRR RPGQLIKTIA ALEDLQLSIL HTNITTMEQT 360 VLYSFNVKIT SETKFTAEDI ASSIQEIFSF IHANTTM*

Sequence ? help Back to Top

Protein Sequence Length: 398 aa Download sequence Send to blast

MDKDYSAPNF LGESSGGNDD NNSGMIDYMF NRNLQQQKQS MPQQQQLSPS GFGATPTFDK  60
MSFADVMQFA DFGPKLALNQ TRNQDDQETG MDPVYFLKFP VLNDKIEDHN QTHHLMSQEG  120
GECEGNIGNV FLEEKENQDD ENDNNSVQLR FIGEQEDEDR ENKNVTTKEV KSKRKRARTS  180
KTSEEVESQR MTHIAVERNR RKQMNEHLRV LRSLMPGSYV QRGDQASIIG GAIEFVRELE  240
QLLQCLESQK RRRILGETGS RQIGDMNTTT TSSSPITSVA NPLIITGSVT ELEGGGGGLR  300
EETAEKKSCL ADVEVKLLGF DAMIKILSRR RPGQLIKTIA ALEDLQLSIL HTNITTMEQT  360
VLYSFNVKIT SETKFTAEDI ASSIQEIFSF IHANTTM*

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	189	200	RMTHIAVERNRR
2	249	253	KRRRI

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription activator (PubMed:17088607, PubMed:17183265, PubMed:17183267). Together with MYB88 and MYB124, ensures that stomata contain just two guard cells (GCs) by enforcing a single symmetric precursor cell division before stomatal maturity (PubMed:24571519). Together with SPCH and MUTE, regulates the stomata formation. Required to promote differentiation and morphogenesis of stomatal guard cells and to halt proliferative divisions in their immediate precursors. Mediates the formation of stomata (PubMed:17088607, PubMed:17183265, PubMed:17183267). Prevents histone H3K27me3 marks and derepresses stem cell gene expression (PubMed:24654956). {ECO:0000269\|PubMed:17088607, ECO:0000269\|PubMed:17183265, ECO:0000269\|PubMed:17183267, ECO:0000269\|PubMed:24571519, ECO:0000269\|PubMed:24654956}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Thhalv10002558m

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Inhibited by low relative humidity (LRH) via epigenetic CG methylation, thus leading to a reduced stomatal index. {ECO:0000269\|PubMed:22442411}.

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	AK221324	0.0	AK221324.1 Arabidopsis thaliana mRNA for putative bHLH transcription factor, complete cds, clone: RAFL25-14-O10.
GenBank	BT028961	0.0	BT028961.1 Arabidopsis thaliana At3g24140 mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_006418807.1	0.0	transcription factor FAMA
Swissprot	Q56YJ8	0.0	FAMA_ARATH; Transcription factor FAMA
TrEMBL	V4LBV1	0.0	V4LBV1_EUTSA; Uncharacterized protein
STRING	XP_006418807.1	0.0	(Eutrema salsugineum)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM5548	26	49

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G24140.1	0.0	bHLH family protein

Link Out ? help Back to Top
Phytozome	Thhalv10002558m
Entrez Gene	18013705

Publications ? help Back to Top
Skinner MK,Rawls A,Wilson-Rawls J,Roalson EH Basic helix-loop-helix transcription factor gene family phylogenetics and nomenclature. Differentiation, 2010. 80(1): p. 1-8 [PMID:20219281] Matos JL, et al. Irreversible fate commitment in the Arabidopsis stomatal lineage requires a FAMA and RETINOBLASTOMA-RELATED module. Elife, 2015. [PMID:25303364] 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] 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] Han X, et al. Jasmonate Negatively Regulates Stomatal Development in Arabidopsis Cotyledons. Plant Physiol., 2018. 176(4): p. 2871-2885 [PMID:29496884] Li X,Yang R,Chen H The Arabidopsis thaliana Mediator subunit MED8 regulates plant immunity to Botrytis Cinerea through interacting with the basic helix-loop-helix (bHLH) transcription factor FAMA. PLoS ONE, 2018. 13(3): p. e0193458 [PMID:29513733]