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

PGSC0003DMP400037647

Organism

Solanum tuberosum

Taxonomic ID

4113

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Solanoideae; Solaneae; Solanum

Family

bHLH

Protein Properties

Length: 268aa MW: 29914.1 Da PI: 8.2498

Description

bHLH family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
PGSC0003DMP400037647	genome	PGSC	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	HLH	13.1	0.00018	39	79	4	55
HHHHHHHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS HLH 4 ahnerErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55 ++ ++Er+RR+++ +++ +Lr+l+ k +i + A+ YI++Lq PGSC0003DMP400037647 39 KNLKAERNRRQKLSERLLQLRSLMTKE-----------TIITDAITYIRELQ 79 56689*******************998...........89999999999998 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
CDD	cd00083	1.00E-6	34	79	No hit	No description
SuperFamily	SSF47459	1.22E-9	35	95	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Gene3D	G3DSA:4.10.280.10	3.2E-6	36	94	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SMART	SM00353	0.0021	41	84	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:0016021	Cellular Component	integral component of membrane
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: 268 aa Download sequence Send to blast
MESPNTTFDN SHNSEEREVG RRTDKRKQID GEVKEYKSKN LKAERNRRQK LSERLLQLRS 60 LMTKETIITD AITYIRELQM NVDNLSEQLL EMEATHGEEP ETKNEEIIDT AEEMGKWGIE 120 PEVQVAHIGP TKLWIKIVCQ KKRGGLTKLM EAMNVLGFDI NDTSATASKG AILITTSVEV 180 SLLMQNANAL RKLDILTVVP SPAPFEGGMN RGRGDQAPAV THIRTHHSFN KSMAGGDLIL 240 GGFATALIAS IFCYIRVTRK RNQHSQG*

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	20	26	RRTDKRK
2	20	27	RRTDKRKQ

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	PGSC0003DMP400037647

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	HG975441	1e-108	HG975441.1 Solanum pennellii chromosome ch02, complete genome.
GenBank	HG975514	1e-108	HG975514.1 Solanum lycopersicum chromosome ch02, complete genome.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_015065394.1	1e-118	transcription factor DYT1
Swissprot	O81900	5e-38	DYT1_ARATH; Transcription factor DYT1
TrEMBL	M1BYR4	0.0	M1BYR4_SOLTU; Uncharacterized protein
STRING	PGSC0003DMT400055910	0.0	(Solanum tuberosum)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Asterids	OGEA9107	16	22

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT4G21330.1	2e-40	bHLH family protein

Link Out ? help Back to Top
Phytozome	PGSC0003DMP400037647

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] Xu X, et al. Genome sequence and analysis of the tuber crop potato. Nature, 2011. 475(7355): p. 189-95 [PMID:21743474] 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]