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

Cucsa.256420.1

Common Name

Csa_3G131940, LOC101214530

Organism

Cucumis sativus

Taxonomic ID

3659

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Cucurbitales; Cucurbitaceae; Benincaseae; Cucumis

Family

bHLH

Protein Properties

Length: 346aa MW: 38484 Da PI: 5.044

Description

bHLH family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Cucsa.256420.1	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	HLH	38.4	2.2e-12	145	196	1	55
CHHHHHHHHHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS HLH 1 rrrahnerErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55 +r++h ++Er+RR+++N+ + Lr+l+P + + ++ + a+i A+e++++L+ Cucsa.256420.1 145 QRMTHIAVERNRRKQMNEHLRVLRSLMPGS---YVQRGDQASIIGGAIEFVRELE 196 79**************************...9***************9995 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
CDD	cd00083	3.89E-13	143	200	No hit	No description
Gene3D	G3DSA:4.10.280.10	1.1E-13	143	199	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
PROSITE profile	PS50888	15.428	144	195	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SuperFamily	SSF47459	1.03E-16	144	212	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Pfam	PF00010	1.0E-9	145	196	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SMART	SM00353	3.4E-9	150	201	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
PROSITE profile	PS51671	8.573	271	345	IPR002912	ACT domain
CDD	cd04873	0.00236	271	335	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:0016597	Molecular Function	amino acid binding
GO:0046983	Molecular Function	protein dimerization activity

Sequence ? help Back to Top
Protein Sequence Length: 346 aa Download sequence Send to blast
MRSRPNFETS ADNSTGILTY FPPNPITSPD KLSFGEVMQF ADFGPKLSLN RFDDDDSEPP 60 GIDPVYFLKF PVLNNERVED TAGGGETEEA AEIGGRSLVV GELEEENFRS NNNNNNNNGN 120 NGNNNNNNKR KRGRTVKTSE EVESQRMTHI AVERNRRKQM NEHLRVLRSL MPGSYVQRGD 180 QASIIGGAIE FVRELEQLLQ CLESQKRRRL LGEPPIVQAA DTPPQQQPPF LPPGAVNFPG 240 HQNDAQIFET TAESKSCLAD VEVKVVGFDA MIKILSRRRP GQLIKAIAAL EDLQLNILHT 300 NITTIEQTVL YSFNVKIASE SRFTAEDIAS SVQQIFNFIH ANTGM*

Sequence ? help Back to Top

Protein Sequence Length: 346 aa Download sequence Send to blast

MRSRPNFETS ADNSTGILTY FPPNPITSPD KLSFGEVMQF ADFGPKLSLN RFDDDDSEPP  60
GIDPVYFLKF PVLNNERVED TAGGGETEEA AEIGGRSLVV GELEEENFRS NNNNNNNNGN  120
NGNNNNNNKR KRGRTVKTSE EVESQRMTHI AVERNRRKQM NEHLRVLRSL MPGSYVQRGD  180
QASIIGGAIE FVRELEQLLQ CLESQKRRRL LGEPPIVQAA DTPPQQQPPF LPPGAVNFPG  240
HQNDAQIFET TAESKSCLAD VEVKVVGFDA MIKILSRRRP GQLIKAIAAL EDLQLNILHT  300
NITTIEQTVL YSFNVKIASE SRFTAEDIAS SVQQIFNFIH ANTGM*

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	145	156	RMTHIAVERNRR
2	205	209	KRRRL

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}.

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	LN681848	0.0	LN681848.1 Cucumis melo genomic scaffold, anchoredscaffold00006.
GenBank	LN713260	0.0	LN713260.1 Cucumis melo genomic chromosome, chr_6.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_004133999.2	0.0	PREDICTED: transcription factor FAMA
Refseq	XP_011650878.1	0.0	PREDICTED: transcription factor FAMA
Swissprot	Q56YJ8	1e-131	FAMA_ARATH; Transcription factor FAMA
TrEMBL	A0A0A0L9F4	0.0	A0A0A0L9F4_CUCSA; Uncharacterized protein
STRING	XP_008438368.1	0.0	(Cucumis melo)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF10489	33	40

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G24140.1	1e-114	bHLH family protein

Link Out ? help Back to Top
Phytozome	Cucsa.256420.1
Entrez Gene	101214530

Publications ? help Back to Top
Ren Y, et al. An integrated genetic and cytogenetic map of the cucumber genome. PLoS ONE, 2009. 4(6): p. e5795 [PMID:19495411] 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] Guo S, et al. Transcriptome sequencing and comparative analysis of cucumber flowers with different sex types. BMC Genomics, 2010. 11: p. 384 [PMID:20565788] Li Z, et al. RNA-Seq improves annotation of protein-coding genes in the cucumber genome. BMC Genomics, 2011. 12: p. 540 [PMID:22047402] 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]