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

Solyc09g091760.1.1

Organism

Solanum lycopersicum

Taxonomic ID

4081

Taxonomic Lineage

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

Family

bHLH

Protein Properties

Length: 248aa MW: 28307.4 Da PI: 7.0346

Description

bHLH family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Solyc09g091760.1.1	genome	ITAG	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	HLH	44.4	3e-14	53	104	1	55
CHHHHHHHHHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS HLH 1 rrrahnerErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55 +r++h e+Er+RR+++N+ ++ Lr+l+P++ + ++ + a+i+ A+e++++L+ Solyc09g091760.1.1 53 QRMTHIEVERNRRKQMNEHLHVLRSLMPSS---YVQRGDQASIVGGAIEFVRELE 104 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	3.7E-14	51	107	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
CDD	cd00083	3.16E-12	51	108	No hit	No description
PROSITE profile	PS50888	15.313	52	103	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SuperFamily	SSF47459	1.11E-16	52	118	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Pfam	PF00010	1.4E-11	53	104	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SMART	SM00353	5.8E-10	58	109	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SuperFamily	SSF55021	5.15E-6	176	240	No hit	No description
CDD	cd04873	0.00509	176	240	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: 248 aa Download sequence Send to blast
MVNIDEEKAL MVSQKEEEIN VTFVGENSKG NESKKKRKRT KIRMKSSEEV ENQRMTHIEV 60 ERNRRKQMNE HLHVLRSLMP SSYVQRGDQA SIVGGAIEFV RELEQLLQCL ESQKRRKLYG 120 DNHQDSSLLM EIQNPSNNLV YAPNNNEIGI IQEDIAEIKS CLADVEVKII GIDNAMIKVL 180 SKRRPGQLIN TISALQDLQL NIIHTNVTTI EQTVLYTFNV KICGETRFSA DDIANLVQQI 240 FSFFSCK*

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	34	39	KKRKRT
2	53	64	RMTHIEVERNRR

Expression -- Description ? help Back to Top
Source	Description
Uniprot	DEVELOPMENTAL STAGE: Not expressed in meristemoids, but strongly expressed in guard mother cells (GMCs) and in young guard cells (at protein level) (PubMed:17088607). Expressed at the transition to terminal stomatal differentiation, just before and after the symmetric division of stomatal differentiation, being confined to late-stage GMC and to young, still differentiating guard cells (PubMed:24571519). {ECO:0000269\|PubMed:17088607, ECO:0000269\|PubMed:24571519}.
Uniprot	TISSUE SPECIFICITY: Resctricted to stomatal cell lineages (at protein level). Expressed in roots, leaves, stems, and flowers. {ECO:0000269\|PubMed:12679534, ECO:0000269\|PubMed:17088607}.

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	Solyc09g091760.1.1

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 -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_010326822.1	0.0	transcription factor FAMA isoform X1
Refseq	XP_019071015.1	0.0	transcription factor FAMA isoform X1
Swissprot	Q56YJ8	3e-93	FAMA_ARATH; Transcription factor FAMA
TrEMBL	A0A3Q7I9F6	1e-180	A0A3Q7I9F6_SOLLC; Uncharacterized protein
STRING	Solyc09g091760.1.1	0.0	(Solanum lycopersicum)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Asterids	OGEA4657	23	41
Representative plant	OGRP253	15	131

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G24140.1	1e-81	bHLH family protein

Link Out ? help Back to Top
Phytozome	Solyc09g091760.1.1

Publications ? help Back to Top
Wang Y,van der Hoeven RS,Nielsen R,Mueller LA,Tanksley SD Characteristics of the tomato nuclear genome as determined by sequencing undermethylated EcoRI digested fragments. Theor. Appl. Genet., 2005. 112(1): p. 72-84 [PMID:16208505] 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]