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_013588080.1

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: 239aa MW: 27587 Da PI: 7.5492

Description

bHLH family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_013588080.1	genome	NCBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	HLH	35.9	1.3e-11	61	104	7	55
HHHHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS HLH 7 erErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55 e+ErrRR+++ ++ Lr+++P+ + ++Ka+i+e A+ YI +Lq XP_013588080.1 61 EAERRRREKLHGRLMALRSHVPTV-----TNMTKASIVEDAITYIGELQ 104 79*******************8.....69*************998 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
CDD	cd00083	5.38E-11	52	108	No hit	No description
SuperFamily	SSF47459	2.22E-15	53	123	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
PROSITE profile	PS50888	14.653	54	103	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SMART	SM00353	2.5E-12	60	109	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Pfam	PF00010	3.5E-9	61	104	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Gene3D	G3DSA:4.10.280.10	2.9E-13	61	119	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: 239 aa Download sequence Send to blast
MPFNHKQEKK HFCVKIIGEE GKIMGGGNKF QEPVKINRRR QVRKEKEEDE VNESFKSPNL 60 EAERRRREKL HGRLMALRSH VPTVTNMTKA SIVEDAITYI GELQKIVENL TEKLHEMEET 120 PLEIYEQQTV HTIKPEVEAI DLKMEMKKTG IEENVQFCKI GKRKFWLKIT TEKRPGIFTK 180 FMEVMCLLGF EIIDITLATS NGAIIISSSV QILQGLCDGD SVDPQQTKDF LLEVMRSNP

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	62	67	ERRRRE
2	63	68	RRRREK

Expression -- Description ? help Back to Top
Source	Description
Uniprot	DEVELOPMENTAL STAGE: First observed in floral meristem and early anther primordia. Later detected in archesporial cells. From stage 4 to early stage 5, weakly expressed in precursors of the middle layer, tapetum and meiocytes. Strongly expressed in the tapetum from late anther stage 5 to early stage 6, and at a lower level in meiocytes. {ECO:0000269\|PubMed:16831835}.
Uniprot	TISSUE SPECIFICITY: Mostly expressed in anthers, and, to a lower extent, in young inflorescences undergoing meiosis and siliques. {ECO:0000269\|PubMed:16831835}.

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription factor. Involved in the control of tapetum development. Required for male fertility and pollen differentiation, especially during callose deposition. {ECO:0000269\|PubMed:16831835}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	XP_013588080.1

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	EF104530	1e-139	EF104530.1 Brassica rapa clone E30_5 genomic sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_013588080.1	1e-176	PREDICTED: transcription factor DYT1
Refseq	XP_013701375.2	1e-176	transcription factor DYT1-like
Refseq	XP_013724568.2	1e-176	transcription factor DYT1-like
Swissprot	O81900	1e-108	DYT1_ARATH; Transcription factor DYT1
TrEMBL	A0A0D3A4T9	1e-156	A0A0D3A4T9_BRAOL; Uncharacterized protein
TrEMBL	A0A3P6F8U0	1e-156	A0A3P6F8U0_BRAOL; Uncharacterized protein
STRING	Bo1g024080.1	1e-157	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM8358	25	38

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT4G21330.1	1e-106	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] Jiang J,Zhang Z,Cao J Pollen wall development: the associated enzymes and metabolic pathways. Plant Biol (Stuttg), 2013. 15(2): p. 249-63 [PMID:23252839] Qian H, et al. Trace concentrations of imazethapyr (IM) affect floral organs development and reproduction in Arabidopsis thaliana: IM-induced inhibition of key genes regulating anther and pollen biosynthesis. Ecotoxicology, 2015. 24(1): p. 163-71 [PMID:25348600] Shumin Z, et al. One novel cis-element is essential for correct DYSFUNCTIONAL TAPETUM 1 (DYT1) expression in Arabidopsis thaliana. Plant Cell Rep., 2015. 34(10): p. 1773-80 [PMID:26134855] Cui J, et al. Feedback Regulation of DYT1 by Interactions with Downstream bHLH Factors Promotes DYT1 Nuclear Localization and Anther Development. Plant Cell, 2016. 28(5): p. 1078-93 [PMID:27113773] Arkadir D, et al. DYT1 dystonia increases risk taking in humans. Elife, 2017. [PMID:27249418] Premi E, et al. Functional Connectivity Networks in Asymptomatic and Symptomatic DYT1 Carriers. Mov. Disord., 2016. 31(11): p. 1739-1743 [PMID:27453152] Beauvais G, et al. Disruption of Protein Processing in the Endoplasmic Reticulum of DYT1 Knock-in Mice Implicates Novel Pathways in Dystonia Pathogenesis. J. Neurosci., 2016. 36(40): p. 10245-10256 [PMID:27707963] Richter F,Gerstenberger J,Bauer A,Liang CC,Richter A Sensorimotor tests unmask a phenotype in the DYT1 knock-in mouse model of dystonia. Behav. Brain Res., 2017. 317: p. 536-541 [PMID:27769743] Zhou S, et al. Function Identification of the Nucleotides in Key cis-Element of DYSFUNCTIONAL TAPETUM1 (DYT1) Promoter. Front Plant Sci, 2017. 8: p. 153 [PMID:28261229] Li DD,Xue JS,Zhu J,Yang ZN Gene Regulatory Network for Tapetum Development in Arabidopsis thaliana. Front Plant Sci, 2017. 8: p. 1559 [PMID:28955355] Ponterio G, et al. Enhanced mu opioid receptor-dependent opioidergic modulation of striatal cholinergic transmission in DYT1 dystonia. Mov. Disord., 2018. 33(2): p. 310-320 [PMID:29150865] György B, et al. Mutant torsinA in the heterozygous DYT1 state compromises HSV propagation in infected neurons and fibroblasts. Sci Rep, 2018. 8(1): p. 2324 [PMID:29396398]