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

GSBRNA2T00015245001

Common Name

GSBRNA2T00015245001

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: 432aa MW: 47808.6 Da PI: 6.2719

Description

bHLH family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSBRNA2T00015245001	genome	Genoscope	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	HLH	36.6	8.3e-12	250	292	7	54
HHHHHHHHHHHHHHHHHHCTSCC.C...TTS-STCHHHHHHHHHHHHHH CS HLH 7 erErrRRdriNsafeeLrellPk.askapskKlsKaeiLekAveYIksL 54 ++ErrRR+++N+++ Lr+++Pk + K++ a+iL A++Y+k+L GSBRNA2T00015245001 250 MAERRRRKKLNDRLYMLRSVVPKiS------KMDRASILGDAIDYLKEL 292 79*******************66......**************98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50888	15.866	243	292	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SuperFamily	SSF47459	1.2E-16	246	310	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Pfam	PF00010	1.9E-9	249	292	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SMART	SM00353	4.2E-14	249	298	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
CDD	cd00083	5.95E-13	250	296	No hit	No description
Gene3D	G3DSA:4.10.280.10	1.1E-15	250	305	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
CDD	cd04873	2.40E-6	360	420	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: 432 aa Download sequence Send to blast
MNGNGTWLHD AGEPSQANDN DESRTWVRNT EENWFSNPQP LNPLHNNQND FRFNSGAFPS 60 NPSENLLLLL QQEQQQQQQQ SFLTTKACMA SLLNIPTSNT NNNINSNPFD ELGFSSGFLG 120 QTNQTPLSMS FSGMSSPPDF LSSRSIPPPE NSSFTPLEFA GVANGVFENR AKVLKPLEVL 180 ASSTSQPTLF QKRAAMRQSS SSKTCNSESS SEMRRSSYEP DIDDTSTGII DISDEHNKGK 240 KKGMPAKNLM AERRRRKKLN DRLYMLRSVV PKISKMDRAS ILGDAIDYLK ELLQRINDLH 300 TELESTAPPS SSSLNPLTPT TQTLSYRVKE ELCPSSSFPS PRGEQARIEV KLREGKAVNI 360 HMFCGRRPGL LLSTMRALDN LGLDVQQAVV SCFNGFALDV FRAEQCQEGH DVVPEQIKAV 420 LLDTVGYTGL V*

Sequence ? help Back to Top

Protein Sequence Length: 432 aa Download sequence Send to blast

MNGNGTWLHD AGEPSQANDN DESRTWVRNT EENWFSNPQP LNPLHNNQND FRFNSGAFPS  60
NPSENLLLLL QQEQQQQQQQ SFLTTKACMA SLLNIPTSNT NNNINSNPFD ELGFSSGFLG  120
QTNQTPLSMS FSGMSSPPDF LSSRSIPPPE NSSFTPLEFA GVANGVFENR AKVLKPLEVL  180
ASSTSQPTLF QKRAAMRQSS SSKTCNSESS SEMRRSSYEP DIDDTSTGII DISDEHNKGK  240
KKGMPAKNLM AERRRRKKLN DRLYMLRSVV PKISKMDRAS ILGDAIDYLK ELLQRINDLH  300
TELESTAPPS SSSLNPLTPT TQTLSYRVKE ELCPSSSFPS PRGEQARIEV KLREGKAVNI  360
HMFCGRRPGL LLSTMRALDN LGLDVQQAVV SCFNGFALDV FRAEQCQEGH DVVPEQIKAV  420
LLDTVGYTGL V*

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	239	257	KKKGMPAKNLMAERRRRKK
2	251	258	ERRRRKKL

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Bna.6115	1e-170	leaf\| seed

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Expressed constitutively in roots, leaves, stems, and flowers. Broad expression within stomatal cell lineages of leaf epidermis, except in mature guard-cells. {ECO:0000269\|PubMed:12679534, ECO:0000269\|PubMed:18641265}.

Functional Description ? help Back to Top
Source	Description
UniProt	Mediates stomatal differentiation in the epidermis probably by controlling successive roles of SPCH, MUTE, and FAMA (PubMed:18641265). Functions as a dimer with SPCH during stomatal initiation (PubMed:18641265, PubMed:28507175). {ECO:0000269\|PubMed:18641265, ECO:0000269\|PubMed:28507175}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	GSBRNA2T00015245001

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	AK118011	1e-180	AK118011.1 Arabidopsis thaliana At1g12860 mRNA for putative bHLH transcription factor (bHLH033), complete cds, clone: RAFL19-21-N13.
GenBank	BT005377	1e-180	BT005377.1 Arabidopsis thaliana At1g12860 mRNA, complete cds.
GenBank	EU369670	1e-180	EU369670.1 Arabidopsis thaliana bHLH protein (SCREAM2) mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_009110613.1	0.0	PREDICTED: transcription factor SCREAM2-like
Refseq	XP_009110614.1	0.0	PREDICTED: transcription factor SCREAM2-like
Refseq	XP_018509489.1	0.0	PREDICTED: transcription factor SCREAM2-like
Swissprot	Q9LPW3	0.0	SCRM2_ARATH; Transcription factor SCREAM2
TrEMBL	A0A078G8Q3	0.0	A0A078G8Q3_BRANA; BnaA08g24520D protein
STRING	Bra016749.1-P	0.0	(Brassica rapa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM1952	27	82

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G12860.1	1e-147	bHLH family protein

Publications ? help Back to Top
Tarasov VA,Khadeeva NV,Mel'nik VA,Ezhova TA,Shestakov SV The Atlg12860 gene of Arabidopsis thaliana determines cathelicidin-like antimicrobial activity. Dokl. Biol. Sci., 2009. [PMID:19760875] 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] Ding Y, et al. Four distinct types of dehydration stress memory genes in Arabidopsis thaliana. BMC Plant Biol., 2013. 13: p. 229 [PMID:24377444] 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] Emmerstorfer A, et al. Over-expression of ICE2 stabilizes cytochrome P450 reductase in Saccharomyces cerevisiae and Pichia pastoris. Biotechnol J, 2015. 10(4): p. 623-35 [PMID:25641738] Lee HG,Seo PJ The MYB96-HHP module integrates cold and abscisic acid signaling to activate the CBF-COR pathway in Arabidopsis. Plant J., 2015. 82(6): p. 962-77 [PMID:25912720] Raissig MT,Abrash E,Bettadapur A,Vogel JP,Bergmann DC Grasses use an alternatively wired bHLH transcription factor network to establish stomatal identity. Proc. Natl. Acad. Sci. U.S.A., 2016. 113(29): p. 8326-31 [PMID:27382177] Fu ZW,Wang YL,Lu YT,Yuan TT Nitric oxide is involved in stomatal development by modulating the expression of stomatal regulator genes in Arabidopsis. Plant Sci., 2016. 252: p. 282-289 [PMID:27717464] de Marcos A, et al. A Mutation in the bHLH Domain of the SPCH Transcription Factor Uncovers a BR-Dependent Mechanism for Stomatal Development. Plant Physiol., 2017. 174(2): p. 823-842 [PMID:28507175]