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

GSBRNA2T00128323001

Common Name

GSBRNA2T00128323001

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: 357aa MW: 40565.2 Da PI: 7.2866

Description

bHLH family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSBRNA2T00128323001	genome	Genoscope	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	HLH	36.8	7.1e-12	160	211	1	55
CHHHHHHHHHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS HLH 1 rrrahnerErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55 +r ah ++Er+RR+++N+ + Lr+l+P + + ++ + a+i+ ++e++++L+ GSBRNA2T00128323001 160 QRLAHIAVERNRRKQMNEHLCVLRSLMPGS---YVQRRDQASIVGGVIEFLSELE 211 799*************************...9***************9985 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
CDD	cd00083	1.21E-11	158	215	No hit	No description
Gene3D	G3DSA:4.10.280.10	1.8E-11	158	214	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SuperFamily	SSF47459	4.45E-15	159	223	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
PROSITE profile	PS50888	14.259	159	210	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Pfam	PF00010	2.3E-9	160	211	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SMART	SM00353	6.2E-7	165	216	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: 357 aa Download sequence Send to blast
MIDHMFKRNL QKQKQSMPQQ QQLSPSGFGA TPTFDKMSFA DVMQFADFGP MLALNQTRSQ 60 NDQETWMDPF YILKFPVFNG DHNQTHHIMS QEGGGCEGNI SNVFLEEQDN QEEKNDKNSM 120 QLRFIGEEED RENKNDTTKE VKKKRKRART SKTSEEVESQ RLAHIAVERN RRKQMNEHLC 180 VLRSLMPGSY VQRRDQASIV GGVIEFLSEL EQLLQCLESQ KRRRILGETN DIHGGDMTTT 240 VITSSAITSS NPLIITGNVT ELEGGGGIQE ETAEKKSCLA DVEVKLLGFN AMIKILSRRR 300 PRQLIMTIAA LEDLHLSILH TNITTMEQTV LYSFNVKVSF INVYLSKKKV SLMFAL*

Sequence ? help Back to Top

Protein Sequence Length: 357 aa Download sequence Send to blast

MIDHMFKRNL QKQKQSMPQQ QQLSPSGFGA TPTFDKMSFA DVMQFADFGP MLALNQTRSQ  60
NDQETWMDPF YILKFPVFNG DHNQTHHIMS QEGGGCEGNI SNVFLEEQDN QEEKNDKNSM  120
QLRFIGEEED RENKNDTTKE VKKKRKRART SKTSEEVESQ RLAHIAVERN RRKQMNEHLC  180
VLRSLMPGSY VQRRDQASIV GGVIEFLSEL EQLLQCLESQ KRRRILGETN DIHGGDMTTT  240
VITSSAITSS NPLIITGNVT ELEGGGGIQE ETAEKKSCLA DVEVKLLGFN AMIKILSRRR  300
PRQLIMTIAA LEDLHLSILH TNITTMEQTV LYSFNVKVSF INVYLSKKKV SLMFAL*

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	220	224	KRRRI

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Bna.24247	2e-73	leaf

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	GSBRNA2T00128323001

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	AB028621	1e-100	AB028621.1 Arabidopsis thaliana genomic DNA, chromosome 3, P1 clone:MUJ8.
GenBank	CP002686	1e-100	CP002686.1 Arabidopsis thaliana chromosome 3, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_009102547.1	0.0	PREDICTED: transcription factor FAMA
Refseq	XP_013752047.1	0.0	transcription factor FAMA-like
Swissprot	Q56YJ8	1e-172	FAMA_ARATH; Transcription factor FAMA
TrEMBL	A0A3P6AZX7	0.0	A0A3P6AZX7_BRACM; Uncharacterized protein
STRING	Bo7g037540.1	0.0	(Brassica oleracea)

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-146	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]