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

Carubv10007389m

Common Name

CARUB_v10007389mg

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: 208aa MW: 23024.9 Da PI: 9.9918

Description

bHLH family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Carubv10007389m	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	HLH	29.2	1.7e-09	130	172	8	55
HHHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS HLH 8 rErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55 + ++RR+ri +++ L+el+P+ +K++ +++LekA+ Y+k Lq Carubv10007389m 130 AAKNRRERISERLKVLQELVPNG-----TKVDLVTMLEKAIGYVKFLQ 172 569****************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	1.3E-11	121	176	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
PROSITE profile	PS50888	14.888	122	171	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SuperFamily	SSF47459	4.71E-13	122	180	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
CDD	cd00083	1.04E-10	124	175	No hit	No description
SMART	SM00353	2.1E-10	128	177	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Pfam	PF00010	1.4E-6	130	172	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: 208 aa Download sequence Send to blast
FSFDHHRSFV LPANSDSALS VLDRNMSYSY TGWTEQMDSI SPRVIKSSNC FATMRSFELT 60 SNPASKPATN HSDGDWLYSD STIVKTGSIL ESLSPKPAGN KRPSIGENTQ VSKKAKTKTT 120 NSPKDPQSQA AKNRRERISE RLKVLQELVP NGTKVDLVTM LEKAIGYVKF LQLQVNFWPT 180 QGRKAPDISQ VKEAIDAILS QQDMNSN*

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Carubv10007389m

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	AF488615	1e-53	AF488615.1 Arabidopsis thaliana clone bHLH083 putative bHLH transcription factor mRNA, partial sequence.
GenBank	AY128310	1e-53	AY128310.1 Arabidopsis thaliana unknown protein (At1g66470) mRNA, complete cds.
GenBank	BT006320	1e-53	BT006320.1 Arabidopsis thaliana At1g66470 mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_023635590.1	1e-150	LOW QUALITY PROTEIN: putative transcription factor bHLH086
Swissprot	Q9FJ00	5e-99	BH086_ARATH; Putative transcription factor bHLH086
TrEMBL	R0F3A1	1e-152	R0F3A1_9BRAS; Uncharacterized protein (Fragment)
STRING	XP_006282928.1	1e-153	(Capsella rubella)

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
AT5G37800.1	1e-101	RHD SIX-LIKE 1

Link Out ? help Back to Top
Phytozome	Carubv10007389m
Entrez Gene	17878835

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] 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] 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]