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

RrC469_p3

Organism

Raphanus raphanistrum

Taxonomic ID

109996

Taxonomic Lineage

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

Family

bHLH

Protein Properties

Length: 270aa MW: 30656.4 Da PI: 6.6806

Description

bHLH family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
RrC469_p3	genome	MSU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	HLH	34.2	4.6e-11	179	219	10	55
HHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS HLH 10 rrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55 r+RR++iN+++ +L+ l+P+ +K++ +++Le+Av+Y+k Lq RrC469_p3 179 RKRREKINERLKTLQNLVPNG-----TKVDISTMLEEAVHYVKFLQ 219 9****************97.....8****************9 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50888	15.123	169	218	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SuperFamily	SSF47459	8.11E-14	171	228	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Gene3D	G3DSA:4.10.280.10	2.9E-13	174	226	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SMART	SM00353	2.5E-12	175	224	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
CDD	cd00083	1.03E-11	178	223	No hit	No description
Pfam	PF00010	2.0E-8	179	219	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0009733	Biological Process	response to auxin
GO:0016049	Biological Process	cell growth
GO:0045893	Biological Process	positive regulation of transcription, DNA-templated
GO:0048766	Biological Process	root hair initiation
GO:0046983	Molecular Function	protein dimerization activity

Sequence ? help Back to Top
Protein Sequence Length: 270 aa Download sequence Send to blast
MDVFVDGELE SLLGMFNFDQ CSSSKEERPQ DEMLSLSSLY NGHLHHQNNV LSSDQHAFLI 60 PDMFSFGVMP GGNLPTMLDS WDQNHIPETA ILKRKLHNIE NVHNTNSKCD VTRQELVKAK 120 KKQRVSLESN SADESNTNWR DGQSNSNSSD DEKASVTSVK GKTRATKGTA TDPQSLYARK 180 RREKINERLK TLQNLVPNGT KVDISTMLEE AVHYVKFLQL QIKNLYTTSI YVVTNQNAYL 240 LSSDELWMYA PLAYNGLDMG FHHNLLSRLM

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	178	183	RKRREK

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	AB493481	0.0	AB493481.1 Arabidopsis thaliana At1g27740 mRNA for hypothetical protein, partial cds, clone: RAAt1g27740.
GenBank	AY085436	0.0	AY085436.1 Arabidopsis thaliana clone 151587 mRNA, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_018450222.1	0.0	PREDICTED: transcription factor bHLH54
Swissprot	Q8LEG1	1e-154	BH054_ARATH; Transcription factor bHLH54
TrEMBL	A0A397YD47	1e-173	A0A397YD47_BRACM; Uncharacterized protein
STRING	Bra010921.1-P	1e-172	(Brassica rapa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM4132	22	57

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G27740.1	1e-146	root hair defective 6-like 4

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] Han Y, et al. Altered expression of TaRSL4 gene by genome interplay shapes root hair length in allopolyploid wheat. New Phytol., 2016. 209(2): p. 721-32 [PMID:26334764] Datta S,Prescott H,Dolan L Intensity of a pulse of RSL4 transcription factor synthesis determines Arabidopsis root hair cell size. Nat Plants, 2015. 1: p. 15138 [PMID:27251390] Song L, et al. The Molecular Mechanism of Ethylene-Mediated Root Hair Development Induced by Phosphate Starvation. PLoS Genet., 2016. 12(7): p. e1006194 [PMID:27427911] Vijayakumar P,Datta S,Dolan L ROOT HAIR DEFECTIVE SIX-LIKE4 (RSL4) promotes root hair elongation by transcriptionally regulating the expression of genes required for cell growth. New Phytol., 2016. 212(4): p. 944-953 [PMID:27452638] Hwang Y,Choi HS,Cho HM,Cho HT Tracheophytes Contain Conserved Orthologs of a Basic Helix-Loop-Helix Transcription Factor That Modulate ROOT HAIR SPECIFIC Genes. Plant Cell, 2017. 29(1): p. 39-53 [PMID:28087829] Marzol E,Borassi C,Denita Juárez SP,Mangano S,Estevez JM RSL4 Takes Control: Multiple Signals, One Transcription Factor. Trends Plant Sci., 2017. 22(7): p. 553-555 [PMID:28487046] Stanley CE, et al. Dual-flow-RootChip reveals local adaptations of roots towards environmental asymmetry at the physiological and genetic levels. New Phytol., 2018. 217(3): p. 1357-1369 [PMID:29125191] Feng Y, et al. Ethylene promotes root hair growth through coordinated EIN3/EIL1 and RHD6/RSL1 activity in Arabidopsis. Proc. Natl. Acad. Sci. U.S.A., 2017. 114(52): p. 13834-13839 [PMID:29233944] Shibata M, et al. GTL1 and DF1 regulate root hair growth through transcriptional repression of ROOT HAIR DEFECTIVE 6-LIKE 4 in Arabidopsis. Development, 2018. [PMID:29439132]