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

XP_013639182.1

Organism

Brassica oleracea

Taxonomic ID

3712

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: 170aa MW: 18965 Da PI: 9.9592

Description

bHLH family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_013639182.1	genome	NCBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	HLH	35.3	2.1e-11	7	48	7	53
HHHHHHHHHHHHHHHHHHCTSCC.C...TTS-STCHHHHHHHHHHHHH CS HLH 7 erErrRRdriNsafeeLrellPk.askapskKlsKaeiLekAveYIks 53 ++ErrRR+++N+++ Lr+++P+ + K++ a+iL +++Y+k+ XP_013639182.1 7 MAERRRRKKLNDRLYMLRSVVPSiS------KMDRASILGDTIDYLKE 48 89*******************66......*************96 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50888	15.516	1	49	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SuperFamily	SSF47459	5.63E-16	5	71	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Pfam	PF00010	4.8E-9	6	48	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SMART	SM00353	4.0E-13	6	55	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
CDD	cd00083	3.63E-10	7	52	No hit	No description
Gene3D	G3DSA:4.10.280.10	4.6E-15	7	63	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
CDD	cd04873	4.82E-7	114	155	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: 170 aa Download sequence Send to blast
MPAKNLMAER RRRKKLNDRL YMLRSVVPSI SKMDRASILG DTIDYLKEIL QRINDLHTKL 60 ESTPSSSSGL TPTPQTLPCR VKEELCPSSS SLPSPKGQQA RIAVKLREGK AVNIHMFSGR 120 RPGLLLSTMR ALDDLGLDVQ QAMISCSNGF ALDVFRAEQF QEGQDVLPEL

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	8	15	ERRRRKKL

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	XP_013639182.1

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-134	AK118011.1 Arabidopsis thaliana At1g12860 mRNA for putative bHLH transcription factor (bHLH033), complete cds, clone: RAFL19-21-N13.
GenBank	BT005377	1e-134	BT005377.1 Arabidopsis thaliana At1g12860 mRNA, complete cds.
GenBank	EU369670	1e-134	EU369670.1 Arabidopsis thaliana bHLH protein (SCREAM2) mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_013639182.1	1e-122	PREDICTED: transcription factor SCREAM2-like
Swissprot	Q9LPW3	6e-98	SCRM2_ARATH; Transcription factor SCREAM2
TrEMBL	A0A0D3C9I5	1e-120	A0A0D3C9I5_BRAOL; Uncharacterized protein
STRING	Bo5g016490.1	1e-121	(Brassica oleracea)

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	8e-79	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] 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]