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

PGSC0003DMP400051622

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: 224aa MW: 25767.6 Da PI: 8.6854

Description

bHLH family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
PGSC0003DMP400051622	genome	PGSC	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	HLH	44.6	2.5e-14	54	105	1	55
CHHHHHHHHHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS HLH 1 rrrahnerErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55 +r++h e+Er+RR+++N+ ++ Lr+l+P++ + ++ + a+i+ A+e++++L+ PGSC0003DMP400051622 54 QRMTHIEVERNRRKQMNEHLHVLRSLMPSS---YVQRGDQASIVGGAIEFVRELE 105 79**************************...9***************9995 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF47459	7.98E-17	52	121	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Gene3D	G3DSA:4.10.280.10	3.1E-14	52	108	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
CDD	cd00083	1.70E-11	52	109	No hit	No description
PROSITE profile	PS50888	15.313	53	104	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Pfam	PF00010	1.2E-11	54	105	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SMART	SM00353	5.8E-10	59	110	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain

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: 224 aa Download sequence Send to blast
MVNYNEEEKA LMVSQKEEEI NVTFVGENSK ANESKKKRKR TKIRMKSSEE VENQRMTHIE 60 VERNRRKQMN EHLHVLRSLM PSSYVQRGDQ ASIVGGAIEF VRELEQLLQC LESQKRRKLY 120 GDHQDSSLME IQNPSNLVFA PNNNEIGIIQ EDIAEIKSCL ADVEVKIIGI DNAMIKILSK 180 RRPGQLINTI SALQDLQLNI IHTNVTTIEH TVLYTFNVKV RLR*

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	35	40	KKRKRT
2	54	65	RMTHIEVERNRR

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	PGSC0003DMP400051622

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	HG975448	0.0	HG975448.1 Solanum pennellii chromosome ch09, complete genome.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_015170256.1	1e-158	PREDICTED: transcription factor FAMA
Swissprot	Q56YJ8	2e-78	FAMA_ARATH; Transcription factor FAMA
TrEMBL	M1CWD9	1e-161	M1CWD9_SOLTU; Uncharacterized protein
STRING	PGSC0003DMT400076223	1e-158	(Solanum tuberosum)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G24140.1	5e-65	bHLH family protein

Link Out ? help Back to Top
Phytozome	PGSC0003DMP400051622

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]