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

Carubv10005335m

Common Name

CARUB_v10005335mg

Organism

Capsella rubella

Taxonomic ID

81985

Taxonomic Lineage

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

Family

bHLH

Protein Properties

Length: 305aa MW: 34243.3 Da PI: 4.695

Description

bHLH family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Carubv10005335m	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	HLH	30.6	6e-10	155	202	4	54
HHHHHHHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHH CS HLH 4 ahnerErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksL 54 ++ rEr RR+++N++f L ++l + + +K +K +iL A++ +++L Carubv10005335m 155 TKACRERLRREKLNERFMDLSSVLEPG---RTPKTDKPAILDDAIRILNQL 202 5678********************8...8**************9998 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50888	12.303	151	202	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
CDD	cd00083	1.16E-7	155	205	No hit	No description
Pfam	PF00010	3.0E-7	155	202	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SuperFamily	SSF47459	1.2E-12	157	225	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SMART	SM00353	2.6E-9	157	208	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Gene3D	G3DSA:4.10.280.10	3.2E-11	158	224	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: 305 aa Download sequence Send to blast
LASPPLKKLS SQSQICSERL QMYPSLDDDF VSDLFCFDQS NGAELDDYTQ FGVSLQPNQE 60 DTFPDFGSYG VNLQQEPGEV FSIGAQLDLS SYNGVLPQEL ERVGRKDCGV VQEDEVEIDS 120 GSSGGAVKQE QEHLDDDYAR KRARTGSCSR GGGGTKACRE RLRREKLNER FMDLSSVLEP 180 GRTPKTDKPA ILDDAIRILN QLRDEAHKLE ETNQKLLEEI KSLKAEKNEL REEKLVLKAD 240 KEKTEQQLKS MVVPSSGFMP QIPAAFNHNK MAVYPSYGYM PMWHYMPQSV RDTSRDQELR 300 PPAA*

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00102	PBM	Transfer from AT4G14410	Download

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Carubv10005335m

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	AY088053	0.0	AY088053.1 Arabidopsis thaliana clone 40736 mRNA, complete sequence.
GenBank	AY102106	0.0	AY102106.1 Arabidopsis thaliana AT4g14410/dl3245w mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_006284189.2	0.0	transcription factor bHLH104
Swissprot	Q8L467	0.0	BH104_ARATH; Transcription factor bHLH104
TrEMBL	R0F5N0	0.0	R0F5N0_9BRAS; Uncharacterized protein (Fragment)
STRING	XP_006284189.1	0.0	(Capsella rubella)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM4026	26	53

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT4G14410.1	1e-164	bHLH family protein

Link Out ? help Back to Top
Phytozome	Carubv10005335m
Entrez Gene	17878959

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] Li X,Zhang H,Ai Q,Liang G,Yu D Two bHLH Transcription Factors, bHLH34 and bHLH104, Regulate Iron Homeostasis in Arabidopsis thaliana. Plant Physiol., 2016. 170(4): p. 2478-93 [PMID:26921305] Liang G,Zhang H,Li X,Ai Q,Yu D bHLH transcription factor bHLH115 regulates iron homeostasis in Arabidopsis thaliana. J. Exp. Bot., 2017. 68(7): p. 1743-1755 [PMID:28369511] Wang C,Yao X,Yu D,Liang G Fe-deficiency-induced expression of bHLH104 enhances Fe-deficiency tolerance of Arabidopsis thaliana. Planta, 2017. 246(3): p. 421-431 [PMID:28451750] Ezer D, et al. The G-Box Transcriptional Regulatory Code in Arabidopsis. Plant Physiol., 2017. 175(2): p. 628-640 [PMID:28864470] Min JH, et al. Arabidopsis Basic Helix-Loop-Helix 34 (bHLH34) Is Involved in Glucose Signaling through Binding to a GAGA Cis-Element. Front Plant Sci, 2017. 8: p. 2100 [PMID:29321786] Min JH, et al. A basic helix-loop-helix 104 (bHLH104) protein functions as a transcriptional repressor for glucose and abscisic acid signaling in Arabidopsis. Plant Physiol. Biochem., 2019. 136: p. 34-42 [PMID:30639920]