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

354651

Common Name

ARALYDRAFT_354651

Organism

Arabidopsis lyrata

Taxonomic ID

81972

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis

Family

bHLH

Protein Properties

Length: 209aa MW: 24030.6 Da PI: 4.9834

Description

bHLH family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
354651	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	HLH	33.2	9.7e-11	35	78	7	55
HHHHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS HLH 7 erErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55 e+ErrRR+++ ++ Lr+++P + ++Ka+i+e A+ YI +Lq 354651 35 EAERRRREKLHGRLMALRSHVPIV-----TNMTKASIVEDAITYIGELQ 78 79*******************8.....69*************998 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
CDD	cd00083	5.52E-11	26	82	No hit	No description
SuperFamily	SSF47459	1.57E-14	27	93	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
PROSITE profile	PS50888	14.157	28	77	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SMART	SM00353	4.0E-12	34	83	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Pfam	PF00010	2.2E-8	35	78	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Gene3D	G3DSA:4.10.280.10	5.8E-12	35	93	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006355	Biological Process	regulation of transcription, DNA-templated
GO:0048656	Biological Process	anther wall tapetum formation
GO:0005634	Cellular Component	nucleus
GO:0003700	Molecular Function	transcription factor activity, sequence-specific DNA binding
GO:0043565	Molecular Function	sequence-specific DNA binding
GO:0046983	Molecular Function	protein dimerization activity

Sequence ? help Back to Top
Protein Sequence Length: 209 aa Download sequence Send to blast
MGGGSRFQEP VRMSRRKQVT KEKEEDENFK SPNLEAERRR REKLHGRLMA LRSHVPIVTN 60 MTKASIVEDA ITYIGELQNN VKNLLETFHE MEEAPPETDE EQTDQMIKPE VETSDLKEEI 120 KKLGIEENVQ LCKIGESKFW LKIITEKKAG IFTKFMEVMR FLGFEIIDIS LTTSNGAILI 180 CSSVQIHQEL CDVEQTKDFL LEVMRSNP*

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	36	41	ERRRRE
2	37	42	RRRREK

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}.

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00091	SELEX	Transfer from AT4G21330	Download

Cis-element ? help Back to Top
Source	Link
PlantRegMap	354651

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	Retrieve

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	HQ379628	1e-137	HQ379628.1 Arabidopsis lyrata haplotype Aly-Sb S-locus region genomic sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_002869893.1	1e-151	transcription factor DYT1
Swissprot	O81900	1e-140	DYT1_ARATH; Transcription factor DYT1
TrEMBL	D7MEU9	1e-150	D7MEU9_ARALL; Uncharacterized protein
TrEMBL	G4WH63	1e-150	G4WH63_ARALY; Uncharacterized protein
STRING	fgenesh1_pg.C_scaffold_7001824	1e-151	(Arabidopsis lyrata)

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-120	bHLH family protein

Link Out ? help Back to Top
Phytozome	354651
Entrez Gene	9305964

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]