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

XP_009112355.1

Organism

Brassica rapa

Taxonomic ID

3711

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Brassica

Family

bHLH

Protein Properties

Length: 205aa MW: 23287.8 Da PI: 9.7738

Description

bHLH family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_009112355.1	genome	NCBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	HLH	26.6	1.1e-08	125	165	9	54
HHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHH CS HLH 9 ErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksL 54 r RR+ri +++ L++l+P +K++ a++L +A++Y+k L XP_009112355.1 125 ARHRRERISERIRILQRLVPGG-----TKMDTASMLDEAIHYVKFL 165 699***************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	116	165	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Gene3D	G3DSA:4.10.280.10	2.4E-14	117	175	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SuperFamily	SSF47459	6.15E-15	120	176	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SMART	SM00353	8.3E-14	122	171	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Pfam	PF00010	5.2E-6	126	165	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
CDD	cd00083	4.47E-6	139	170	No hit	No description

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: 205 aa Download sequence Send to blast
MDSDIMNMMM QHMENLPEFC NTNPSLIDHN NNTYPFLFNS NHNHSDSMTH EPGFRYGSGL 60 HASPAYSAIL HDKRHNISNT DNMAAMREMI FRIAMMQPIH IDPEAVKPPK RRNVRISKDP 120 QSVAARHRRE RISERIRILQ RLVPGGTKMD TASMLDEAIH YVKFLKKQVQ SLEEQAVVNG 180 GGVVMKGCGS MGTTHQMVGK AHILR

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Bra.1912	1e-122	seed

Expression -- Description ? help Back to Top
Source	Description
Uniprot	DEVELOPMENTAL STAGE: Expressed in the developing septum, transmitting tract and stigma. {ECO:0000269\|PubMed:17855426}.
Uniprot	TISSUE SPECIFICITY: Flowers, especially in gynoecium. {ECO:0000269\|PubMed:12679534, ECO:0000269\|PubMed:17855426}.

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	XP_009112355.1

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 -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AB020742	8e-92	AB020742.1 Arabidopsis thaliana genomic DNA, chromosome 5, TAC clone:K21H1.
GenBank	AF488618	8e-92	AF488618.1 Arabidopsis thaliana clone bHLH088 putative bHLH transcription factor mRNA, complete cds.
GenBank	AK228927	8e-92	AK228927.1 Arabidopsis thaliana mRNA for putative bHLH transcription factor, complete cds, clone: RAFL16-24-D23.
GenBank	CP002688	8e-92	CP002688.1 Arabidopsis thaliana chromosome 5 sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_009112355.1	1e-153	PREDICTED: transcription factor HEC1-like
Swissprot	Q9FHA7	2e-87	HEC1_ARATH; Transcription factor HEC1
TrEMBL	M4F7R7	1e-152	M4F7R7_BRARP; Uncharacterized protein
STRING	Bra037128.1-P	1e-153	(Brassica rapa)

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	1e-83	bHLH family protein

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]