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

Cagra.2629s0001.1.p

Organism

Capsella grandiflora

Taxonomic ID

264402

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: 300aa MW: 32324.4 Da PI: 6.8026

Description

bHLH family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Cagra.2629s0001.1.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	HLH	30.6	6.1e-10	210	251	9	55
HHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS HLH 9 ErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55 ++RR+ri +++ L+el+P+ +K++ +++LekA+ Y+k Lq Cagra.2629s0001.1.p 210 AKNRRERISERLKILQELVPNG-----TKVDLVTMLEKAISYVKFLQ 251 69****************97.....8****************9 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:4.10.280.10	5.7E-12	201	258	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
PROSITE profile	PS50888	15.32	201	250	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SuperFamily	SSF47459	1.7E-13	202	261	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
CDD	cd00083	2.19E-12	203	255	No hit	No description
SMART	SM00353	5.0E-12	207	256	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Pfam	PF00010	4.5E-7	210	251	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0048766	Biological Process	root hair initiation
GO:0005739	Cellular Component	mitochondrion
GO:0046983	Molecular Function	protein dimerization activity

Sequence ? help Back to Top
Protein Sequence Length: 300 aa Download sequence Send to blast
MALVNDHPNE PNYMAKQNSS SSEDLSSPGL DQPETAYAGG GGGGGSASSS STMNSDHQQH 60 QGFVFYPSGE DHHHNSLMDF NGSSFLNFDH HETFPPPAIS CGGSSGASGF SFLEGNNMSY 120 GFTNWNQHHM DIISPRSTET PQGQKDWLYS DSTVVTTGSR HESMSPKSAG NKRSHTGEST 180 QPSKKPSNGV NGKAKPKPTT SPKDPQSLAA KNRRERISER LKILQELVPN GTKVDLVTML 240 EKAISYVKFL QVQVKVLATD EFWPAQGGKA PDISQVKDAI DAILSSSQRD RTNSNLITN*

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Cagra.2629s0001.1.p

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	AY128310	0.0	AY128310.1 Arabidopsis thaliana unknown protein (At1g66470) mRNA, complete cds.
GenBank	BT006320	0.0	BT006320.1 Arabidopsis thaliana At1g66470 mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_006300942.1	0.0	transcription factor bHLH83
Swissprot	Q9C707	1e-180	BH083_ARATH; Transcription factor bHLH83
TrEMBL	R0I6Z2	0.0	R0I6Z2_9BRAS; Uncharacterized protein
STRING	Cagra.2629s0001.1.p	0.0	(Capsella grandiflora)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM4260	28	54

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G66470.1	1e-174	ROOT HAIR DEFECTIVE6

Link Out ? help Back to Top
Phytozome	Cagra.2629s0001.1.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] Coego A, et al. The TRANSPLANTA collection of Arabidopsis lines: a resource for functional analysis of transcription factors based on their conditional overexpression. Plant J., 2014. 77(6): p. 944-53 [PMID:24456507] Lin CY, et al. Pathways involved in vanadate-induced root hair formation in Arabidopsis. Physiol Plant, 2015. 153(1): p. 137-48 [PMID:24833217] Grierson C,Nielsen E,Ketelaarc T,Schiefelbein J Root hairs. Arabidopsis Book, 2014. 12: p. e0172 [PMID:24982600] Kim CM,Dolan L ROOT HAIR DEFECTIVE SIX-LIKE Class I Genes Promote Root Hair Development in the Grass Brachypodium distachyon. PLoS Genet., 2016. 12(8): p. e1006211 [PMID:27494519] Moro CF, et al. S-nitrosoglutathione promotes cell wall remodelling, alters the transcriptional profile and induces root hair formation in the hairless root hair defective 6 (rhd6) mutant of Arabidopsis thaliana. New Phytol., 2017. 213(4): p. 1771-1786 [PMID:27880005] Bahmani R,Kim DG,Kim JA,Hwang S The Density and Length of Root Hairs Are Enhanced in Response to Cadmium and Arsenic by Modulating Gene Expressions Involved in Fate Determination and Morphogenesis of Root Hairs in Arabidopsis. Front Plant Sci, 2016. 7: p. 1763 [PMID:27933081] Liao X,Lovett B,Fang W,St Leger RJ Metarhizium robertsii produces indole-3-acetic acid, which promotes root growth in Arabidopsis and enhances virulence to insects. Microbiology (Reading, Engl.), 2017. 163(7): p. 980-991 [PMID:28708056] 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]