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

Carubv10027898m

Common Name

CARUB_v10027898mg

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: 243aa MW: 26189.7 Da PI: 10.1594

Description

bHLH family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Carubv10027898m	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	HLH	26.2	1.4e-08	139	179	9	54
HHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHH CS HLH 9 ErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksL 54 r RR+ri +++ L++l+P +K++ a++L +A++Y+k L Carubv10027898m 139 ARHRRERISERIRILQRLVPGG-----TKMDTASMLDEAIHYVKFL 179 699***************87.....8**************98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50888	15.434	130	179	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Gene3D	G3DSA:4.10.280.10	4.0E-14	131	189	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SuperFamily	SSF47459	9.95E-15	134	190	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SMART	SM00353	8.3E-14	136	185	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Pfam	PF00010	6.9E-6	140	179	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
CDD	cd00083	5.36E-6	153	184	No hit	No description

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0010500	Biological Process	transmitting tissue development
GO:0045893	Biological Process	positive regulation of transcription, DNA-templated
GO:0048462	Biological Process	carpel formation
GO:2000012	Biological Process	regulation of auxin polar transport
GO:0043565	Molecular Function	sequence-specific DNA binding
GO:0046983	Molecular Function	protein dimerization activity

Sequence ? help Back to Top
Protein Sequence Length: 243 aa Download sequence Send to blast
MDSDIMNMMM HQMEKLPDFC NPNSSFFSPD QSGNNTTTYP FLFNSSSPNN HSDHSMSNEP 60 GFRYGSAGLL TNPSSLSPNS AYSSVLLDKR NNNSTNMAAM REMIFRIAVM QPIHIDPEAV 120 KPPKRRNVRI SKDPQSVAAR HRRERISERI RILQRLVPGG TKMDTASMLD EAIHYVKFLK 180 KQVQSLEEQA VVNGGGGGGR VLIGGGGMTG ASSSGGGGGG VVMKGCGTMG THQMVGNAQI 240 LR*

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	197	205	GGRVLIGGG

Functional Description ? help Back to Top
Source	Description
UniProt	Required for the female reproductive tract development and fertility. {ECO:0000269\|PubMed:17855426}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Carubv10027898m

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Negatively regulated by ARF3/ETT in the abaxial gynoecium. {ECO:0000269\|PubMed:17855426}.

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_006281742.1	1e-179	transcription factor HEC1
Swissprot	Q9FHA7	1e-110	HEC1_ARATH; Transcription factor HEC1
TrEMBL	R0GQL0	1e-178	R0GQL0_9BRAS; Uncharacterized protein
STRING	XP_006281742.1	1e-179	(Capsella rubella)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM1559	27	91

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G67060.1	4e-79	bHLH family protein

Link Out ? help Back to Top
Phytozome	Carubv10027898m
Entrez Gene	17876424

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] Vercruyssen L, et al. ANGUSTIFOLIA3 binds to SWI/SNF chromatin remodeling complexes to regulate transcription during Arabidopsis leaf development. Plant Cell, 2014. 26(1): p. 210-29 [PMID:24443518] Sparks EE,Benfey PN HEC of a job regulating stem cells. Dev. Cell, 2014. 28(4): p. 349-50 [PMID:24576420] Zhu L, et al. A Negative Feedback Loop between PHYTOCHROME INTERACTING FACTORs and HECATE Proteins Fine-Tunes Photomorphogenesis in Arabidopsis. Plant Cell, 2016. 28(4): p. 855-74 [PMID:27073231] Lozano-Sotomayor P, et al. Altered expression of the bZIP transcription factor DRINK ME affects growth and reproductive development in Arabidopsis thaliana. Plant J., 2016. 88(3): p. 437-451 [PMID:27402171] Boex-Fontvieille E, et al. An Ethylene-Protected Achilles' Heel of Etiolated Seedlings for Arthropod Deterrence. Front Plant Sci, 2016. 7: p. 1246 [PMID:27625656] Gaillochet C, et al. Control of plant cell fate transitions by transcriptional and hormonal signals. Elife, 2018. [PMID:29058667]