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

PGSC0003DMP400027642

Common Name

LOC102586799

Organism

Solanum tuberosum

Taxonomic ID

4113

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Solanoideae; Solaneae; Solanum

Family

bHLH

Protein Properties

Length: 391aa MW: 44069.5 Da PI: 5.0957

Description

bHLH family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
PGSC0003DMP400027642	genome	PGSC	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	171	222	1	55
CHHHHHHHHHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS HLH 1 rrrahnerErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55 +r++h ++Er+RR+++N+ + Lr+l+P + + ++ + a+i A+e++++L+ PGSC0003DMP400027642 171 QRMTHIAVERNRRKQMNEHLRVLRSLMPGS---YVQRGDQASIIGGAIEFVRELE 222 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	1.3E-13	169	225	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
CDD	cd00083	1.88E-12	169	226	No hit	No description
PROSITE profile	PS50888	15.428	170	221	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SuperFamily	SSF47459	1.16E-16	170	246	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Pfam	PF00010	1.2E-9	171	222	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SMART	SM00353	3.4E-9	176	227	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
CDD	cd04873	0.0017	312	376	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: 391 aa Download sequence Send to blast
MEKEENCQAN SLPTSFQMAI IGESSSNNTN NQMVDYMVNS QSIQQQHNQC SLGFLPSNPS 60 LDKLSFADVM QFADFGPKLA LNQTKVLEQD VGIDDPVYFL KFPVLNEKKN VHDNDNDDDD 120 DREALMVSQK ESGGKEKGEN NNNIVEKNQE GKSNNKRKRP RIKTSEEVES QRMTHIAVER 180 NRRKQMNEHL RVLRSLMPGS YVQRGDQASI IGGAIEFVRE LEQLLQCLES QKRRRIYGDA 240 TPTRPLGDSS TTPPPSMPIN QNPNTINPHH QSPILFPLPN EYNIEGEIQE EVAESKSCLA 300 DVEVKLLGFD AMIKILSRRR PGQLIKAIAA LEDMQLSILH TNITTIEQTV LYSFNVKISG 360 ETRYTADDIA NSIQHIFSFI HAEIAPYDIN *

Sequence ? help Back to Top

Protein Sequence Length: 391 aa Download sequence Send to blast

MEKEENCQAN SLPTSFQMAI IGESSSNNTN NQMVDYMVNS QSIQQQHNQC SLGFLPSNPS  60
LDKLSFADVM QFADFGPKLA LNQTKVLEQD VGIDDPVYFL KFPVLNEKKN VHDNDNDDDD  120
DREALMVSQK ESGGKEKGEN NNNIVEKNQE GKSNNKRKRP RIKTSEEVES QRMTHIAVER  180
NRRKQMNEHL RVLRSLMPGS YVQRGDQASI IGGAIEFVRE LEQLLQCLES QKRRRIYGDA  240
TPTRPLGDSS TTPPPSMPIN QNPNTINPHH QSPILFPLPN EYNIEGEIQE EVAESKSCLA  300
DVEVKLLGFD AMIKILSRRR PGQLIKAIAA LEDMQLSILH TNITTIEQTV LYSFNVKISG  360
ETRYTADDIA NSIQHIFSFI HAEIAPYDIN *

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	171	182	RMTHIAVERNRR
2	231	235	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	PGSC0003DMP400027642

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	HG975444	0.0	HG975444.1 Solanum pennellii chromosome ch05, complete genome.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_006365482.1	0.0	PREDICTED: transcription factor FAMA-like
Swissprot	Q56YJ8	1e-129	FAMA_ARATH; Transcription factor FAMA
TrEMBL	M1BAD1	0.0	M1BAD1_SOLTU; Uncharacterized protein
STRING	PGSC0003DMT400040761	0.0	(Solanum tuberosum)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Asterids	OGEA4657	23	41

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G24140.1	9e-96	bHLH family protein

Link Out ? help Back to Top
Phytozome	PGSC0003DMP400027642
Entrez Gene	102586799

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] Xu X, et al. Genome sequence and analysis of the tuber crop potato. Nature, 2011. 475(7355): p. 189-95 [PMID:21743474] 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]