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

Carubv10001721m

Common Name

CARUB_v10001721mg

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: 269aa MW: 29262.4 Da PI: 4.6316

Description

bHLH family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Carubv10001721m	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	HLH	39.4	1.1e-12	201	246	6	55
HHHHHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS HLH 6 nerErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55 +++Er RR ri +++ +L+el+P+ +k + a++Le+AveY+k Lq Carubv10001721m 201 SIAERVRRTRISDRIRKLQELVPNM----DKQTNTADMLEEAVEYVKVLQ 246 689*******************7....688*************998 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50888	14.557	195	245	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SuperFamily	SSF47459	1.96E-16	198	259	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
CDD	cd00083	2.22E-12	199	250	No hit	No description
Gene3D	G3DSA:4.10.280.10	4.9E-16	200	257	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SMART	SM00353	2.6E-12	201	251	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Pfam	PF00010	8.4E-10	201	246	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: 269 aa Download sequence Send to blast
MQSTSVGSSG GGDDGANRGG GGGGQVSRSG LSRIRSAPAT WLEALLEEDE EESLKPNLGL 60 TDLLTGNSNE LPATTSRGGS FEFPIPVEQG LYQQSGFHRQ NSTPADFLSG SDGFIQSFGI 120 PANYDYLSGN IDVSPGSKRS REMEALFSSP EFTSQMKGEQ SSGQVPAAAS SMVDMNMENL 180 MEDSVAFRVR AKRGCATHPR SIAERVRRTR ISDRIRKLQE LVPNMDKQTN TADMLEEAVE 240 YVKVLQRQIQ ELTEEQKRCT CIPKEEEQ*

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Carubv10001721m

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	AK230384	0.0	AK230384.1 Arabidopsis thaliana mRNA for putative bHLH transcription factor, complete cds, clone: RAFL24-31-D13.
GenBank	BT010423	0.0	BT010423.1 Arabidopsis thaliana At4g09180 mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_006288460.1	0.0	transcription factor bHLH81
Swissprot	Q9M0R0	1e-152	BH081_ARATH; Transcription factor bHLH81
TrEMBL	R0HCF1	0.0	R0HCF1_9BRAS; Uncharacterized protein
STRING	XP_006288460.1	0.0	(Capsella rubella)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM5104	25	51

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT4G09180.1	1e-143	bHLH family protein

Link Out ? help Back to Top
Phytozome	Carubv10001721m
Entrez Gene	17883274

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] Vidal EA, et al. Integrated RNA-seq and sRNA-seq analysis identifies novel nitrate-responsive genes in Arabidopsis thaliana roots. BMC Genomics, 2013. 14: p. 701 [PMID:24119003] Ding Y, et al. Four distinct types of dehydration stress memory genes in Arabidopsis thaliana. BMC Plant Biol., 2013. 13: p. 229 [PMID:24377444]