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

Pavir.8KG366700.1.p

Organism

Panicum virgatum

Taxonomic ID

38727

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Panicodae; Paniceae; Panicinae; Panicum

Family

bHLH

Protein Properties

Length: 242aa MW: 26936.2 Da PI: 5.0146

Description

bHLH family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Pavir.8KG366700.1.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	HLH	35.6	1.7e-11	180	220	10	55
HHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS HLH 10 rrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55 ++RR+riN+++ +L++l+P+ +K++ +++Le+Av+Y+k Lq Pavir.8KG366700.1.p 180 KKRRERINERLKTLQQLIPNG-----TKVDMSTMLEEAVQYVKFLQ 220 9****************97.....8****************9 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF47459	3.4E-15	167	233	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Gene3D	G3DSA:4.10.280.10	1.5E-14	168	230	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
PROSITE profile	PS50888	15.612	170	219	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SMART	SM00353	1.7E-11	176	225	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
CDD	cd00083	1.41E-12	179	224	No hit	No description
Pfam	PF00010	5.4E-9	180	220	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: 242 aa Download sequence Send to blast
MEAKGASIWS EESEMIAHLQ SMFWNSSDAD VSLSSPNSST SSCIEPSTLP TALFLPFNEK 60 ESYDTAPLQN AATDWCFDHQ SESFGSIDTA VTGDKRALLM DERRKKSNKK PRIVAPVLMT 120 TSSALDDKAN TELINISSSW CCSSEDDSIG VCEESVVLKQ SCSSRGRSRS SKNSQSLYAK 180 KRRERINERL KTLQQLIPNG TKVDMSTMLE EAVQYVKFLQ LQIKLLSSDE TWMYAPQPLE 240 H*

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	179	190	KKRRERINERLK

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Expressed constitutively in roots, leaves, and flowers. {ECO:0000269\|PubMed:12679534}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Pavir.8KG366700.1.p

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

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_025826894.1	1e-133	transcription factor bHLH139-like isoform X1
Swissprot	Q8LEG1	5e-34	BH054_ARATH; Transcription factor bHLH54
TrEMBL	A0A2S3IFD1	1e-132	A0A2S3IFD1_9POAL; Uncharacterized protein
STRING	Pavir.Hb00249.1.p	1e-178	(Panicum virgatum)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP14002	25	28

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G27740.1	5e-32	root hair defective 6-like 4

Link Out ? help Back to Top
Phytozome	Pavir.8KG366700.1.p

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]