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

Csa11g025120.1

Organism

Camelina sativa

Taxonomic ID

90675

Taxonomic Lineage

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

Family

bHLH

Protein Properties

Length: 212aa MW: 24541.3 Da PI: 5.2625

Description

bHLH family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Csa11g025120.1	genome	CSGP	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	HLH	33.6	7.2e-11	36	79	7	55
HHHHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS HLH 7 erErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55 e+ErrRR+++ ++ Lr+++P + ++Ka+i+e A+ YI +Lq Csa11g025120.1 36 EAERRRRQKLHVRLMALRSHVPIV-----TNMTKASIVEDAITYIGELQ 79 79*******************8.....69*************998 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF47459	8.64E-15	26	95	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
CDD	cd00083	1.47E-10	27	83	No hit	No description
Gene3D	G3DSA:4.10.280.10	2.0E-12	28	94	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
PROSITE profile	PS50888	14.113	29	78	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SMART	SM00353	3.4E-12	35	84	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Pfam	PF00010	2.0E-8	36	79	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:0048658	Biological Process	anther wall tapetum development
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: 212 aa Download sequence Send to blast
MGGGSIFQEP VRMNRRRQVT EENKEEDESF KSPNLEAERR RRQKLHVRLM ALRSHVPIVT 60 NMTKASIVED AITYIGELQK NVQNLSEKLF EMEEAPPEID DVEQTDQTMI KPKLETIHLK 120 EEMKKLGIEE NVQLCKIGER RFWLKIITEK KAGIFTKYME VMRFLGFEII DISLTTSSGT 180 ILISSSVQIH EELCDVEQTK DFLLEVMRSN P*

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	Csa11g025120.1

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	HQ379631	5e-90	HQ379631.1 Arabidopsis lyrata haplotype Aly-S50 S-locus region genomic sequence.
GenBank	KJ772401	5e-90	KJ772401.1 Arabidopsis lyrata haplotype S1 clone 29O9 S-locus region genomic sequence.
GenBank	KJ772414	5e-90	KJ772414.1 Arabidopsis lyrata haplotype S18 clone 04A13 S-locus region genomic sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_010439491.1	1e-154	PREDICTED: transcription factor DYT1-like
Swissprot	O81900	1e-121	DYT1_ARATH; Transcription factor DYT1
TrEMBL	A0A330PHW2	1e-132	A0A330PHW2_9BRAS; At421330-like protein
STRING	XP_010439491.1	1e-153	(Camelina sativa)

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-109	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]