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

GSBRNA2T00002574001

Common Name

GSBRNA2T00002574001

Organism

Brassica napus

Taxonomic ID

3708

Taxonomic Lineage

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

Family

bHLH

Protein Properties

Length: 385aa MW: 43500.8 Da PI: 8.0935

Description

bHLH family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSBRNA2T00002574001	genome	Genoscope	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	HLH	31.9	2.3e-10	189	240	1	55
CHHHHHHHHHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS HLH 1 rrrahnerErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55 +r++ ++Er+RR+++N+ + Lr+l+P + + k+ + a+i ++e++++L+ GSBRNA2T00002574001 189 QRMTRIMVERKRRKQMNEHLRVLRSLMPGS---YVKRGDQASIIGGVIEFVRELE 240 69999***********************...9***************9985 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
CDD	cd00083	6.74E-9	187	237	No hit	No description
Gene3D	G3DSA:4.10.280.10	3.3E-11	187	241	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
PROSITE profile	PS50888	14.488	188	239	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SuperFamily	SSF47459	3.4E-14	188	255	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Pfam	PF00010	1.2E-7	189	240	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SMART	SM00353	5.8E-8	194	245	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
CDD	cd04873	2.52E-4	326	370	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: 385 aa Download sequence Send to blast
MDKYYSASNF FGKPLGGHDS NSSGMIDYTL NGDLQPQKQP MLQQQPHQLS PSEFGATPFF 60 DKKIFIDIMH FADFGPKLAL NRTNNQAVHE TGFDPVCFLK FPVLKERIED HIRTQHLMSS 120 HRTPQEGGEC GGNIGCVFLE DQDNNSRRLR FIRGGENEDR DNDNVTTKEV NSKRKRGRTS 180 KTIEEVESQR MTRIMVERKR RKQMNEHLRV LRSLMPGSYV KRGDQASIIG GVIEFVRELE 240 ELLPCLESQK RRRILEETGH RQTGDMTRPT NPSSCPVTRV ANQTQPLIIT KNITELEGGG 300 GLLEEMTENK SCLADVEVKL LGFDAMIKIL SKRRPGQLLM TMAALEDLHL SILHTSITTM 360 EQTVLYSFIV KASSTCLHII LIGV*

Sequence ? help Back to Top

Protein Sequence Length: 385 aa Download sequence Send to blast

MDKYYSASNF FGKPLGGHDS NSSGMIDYTL NGDLQPQKQP MLQQQPHQLS PSEFGATPFF  60
DKKIFIDIMH FADFGPKLAL NRTNNQAVHE TGFDPVCFLK FPVLKERIED HIRTQHLMSS  120
HRTPQEGGEC GGNIGCVFLE DQDNNSRRLR FIRGGENEDR DNDNVTTKEV NSKRKRGRTS  180
KTIEEVESQR MTRIMVERKR RKQMNEHLRV LRSLMPGSYV KRGDQASIIG GVIEFVRELE  240
ELLPCLESQK RRRILEETGH RQTGDMTRPT NPSSCPVTRV ANQTQPLIIT KNITELEGGG  300
GLLEEMTENK SCLADVEVKL LGFDAMIKIL SKRRPGQLLM TMAALEDLHL SILHTSITTM  360
EQTVLYSFIV KASSTCLHII LIGV*

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	249	253	KRRRI

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	GSBRNA2T00002574001

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_013730342.1	0.0	transcription factor FAMA-like
Swissprot	Q56YJ8	1e-179	FAMA_ARATH; Transcription factor FAMA
TrEMBL	A0A078G0F6	0.0	A0A078G0F6_BRANA; BnaA01g23440D protein
STRING	Bra028351.1-P	0.0	(Brassica rapa)

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	1e-170	bHLH family protein

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] Chalhoub B, et al. Plant genetics. Early allopolyploid evolution in the post-Neolithic Brassica napus oilseed genome. Science, 2014. 345(6199): p. 950-3 [PMID:25146293] 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]