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

Rsa1.0_59118.1_g00001.1

Organism

Raphanus sativus

Taxonomic ID

3726

Taxonomic Lineage

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

Family

bHLH

Protein Properties

Length: 99aa MW: 11324.3 Da PI: 11.5244

Description

bHLH family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Rsa1.0_59118.1_g00001.1	genome	RGD	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	HLH	28.6	2.5e-09	42	83	8	54
HHHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHH CS HLH 8 rErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksL 54 + r RR+ri +++ L++l+P +K++ a++L +A++Y+k L Rsa1.0_59118.1_g00001.1 42 AARHRRERISERIRILQRLVPGG-----TKMDTASMLDEAIHYVKFL 83 5699***************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	34	83	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Gene3D	G3DSA:4.10.280.10	1.0E-14	35	93	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SuperFamily	SSF47459	1.44E-15	38	94	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SMART	SM00353	7.0E-14	40	89	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Pfam	PF00010	1.2E-6	43	83	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
CDD	cd00083	7.23E-6	57	88	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: 99 aa Download sequence Send to blast
MAAMREMIFR IAVMQPVHID PEAVKPPKRR NVRISKDPQS VAARHRRERI SERIRILQRL 60 VPGGTKMDTA SMLDEAIHYV KFLKKQVQTL EHQAVASGG

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	Rsa1.0_59118.1_g00001.1

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	6e-85	AB020742.1 Arabidopsis thaliana genomic DNA, chromosome 5, TAC clone:K21H1.
GenBank	AF488618	6e-85	AF488618.1 Arabidopsis thaliana clone bHLH088 putative bHLH transcription factor mRNA, complete cds.
GenBank	AK228927	6e-85	AK228927.1 Arabidopsis thaliana mRNA for putative bHLH transcription factor, complete cds, clone: RAFL16-24-D23.
GenBank	CP002688	6e-85	CP002688.1 Arabidopsis thaliana chromosome 5 sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_018437881.1	2e-66	PREDICTED: transcription factor HEC1-like
Swissprot	Q9FHA7	5e-52	HEC1_ARATH; Transcription factor HEC1
TrEMBL	A0A2K3MYR0	1e-56	A0A2K3MYR0_TRIPR; Transcription factor HEC1-like protein
TrEMBL	A0A445AQ96	1e-57	A0A445AQ96_ARAHY; Uncharacterized protein
TrEMBL	A0A445ETK0	1e-57	A0A445ETK0_ARAHY; Uncharacterized protein
STRING	Aquca_010_00306.1	5e-56	(Aquilegia coerulea)
STRING	Lus10042647	8e-56	(Linum usitatissimum)

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	5e-48	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]