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_013615044.1

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: 199aa MW: 22181.7 Da PI: 9.302

Description

bHLH family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_013615044.1	genome	NCBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	HLH	34.9	2.8e-11	21	62	7	53
HHHHHHHHHHHHHHHHHHCTSCC.C...TTS-STCHHHHHHHHHHHHH CS HLH 7 erErrRRdriNsafeeLrellPk.askapskKlsKaeiLekAveYIks 53 ++ErrRR+++N+++ Lr+++P+ + K++ a+iL +++Y+k+ XP_013615044.1 21 MAERRRRKKLNDRLYMLRSVVPSiS------KMDRASILGDTIDYLKE 62 79*******************66......*************96 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50888	15.301	14	63	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SuperFamily	SSF47459	4.32E-16	17	85	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Pfam	PF00010	6.5E-9	20	62	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SMART	SM00353	4.0E-13	20	69	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Gene3D	G3DSA:4.10.280.10	6.4E-15	21	77	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
CDD	cd00083	1.66E-10	21	66	No hit	No description
CDD	cd04873	4.03E-8	128	188	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: 199 aa Download sequence Send to blast
MVHLDLDASR KKKGMPAKNL MAERRRRKKL NDRLYMLRSV VPSISKMDRA SILGDTIDYL 60 KEILQRINDL HTKLESTPSS SSGLTPTPQT LPCRVKEELC PSSSSLSSPK GEQARIEVKL 120 REGKAVNIHM FCGRRPGLLL STMRALDDLG LDVQQAVISC FNGFALDVFR AEQCQEGHEV 180 FPEQIKAVLL DTAGYSGLL

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	10	28	KKKGMPAKNLMAERRRRKK
2	22	29	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_013615044.1

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-163	AK118011.1 Arabidopsis thaliana At1g12860 mRNA for putative bHLH transcription factor (bHLH033), complete cds, clone: RAFL19-21-N13.
GenBank	BT005377	1e-163	BT005377.1 Arabidopsis thaliana At1g12860 mRNA, complete cds.
GenBank	EU369670	1e-163	EU369670.1 Arabidopsis thaliana bHLH protein (SCREAM2) mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_013615044.1	1e-145	PREDICTED: transcription factor SCREAM2-like
Swissprot	Q9LPW3	1e-113	SCRM2_ARATH; Transcription factor SCREAM2
TrEMBL	A0A0D2ZUV4	1e-133	A0A0D2ZUV4_BRAOL; Uncharacterized protein
STRING	Bo01390s040.1	1e-134	(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	3e-97	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]