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_00301.1_g00039.1

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: 93aa MW: 10517.7 Da PI: 9.3621

Description

bHLH family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Rsa1.0_00301.1_g00039.1	genome	RGD	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	HLH	22.9	1.5e-07	18	59	14	54
HHHHHHHHHHHCTSCC.C...TTS-STCHHHHHHHHHHHHHH CS HLH 14 driNsafeeLrellPk.askapskKlsKaeiLekAveYIksL 54 d+i + +++Lr+ +P+ + + +s +s + +L+++++YI++L Rsa1.0_00301.1_g00039.1 18 DQITDLISKLRQSIPEiRQNRRSNTVSASKVLQETCNYIRNL 59 799***********9977777779999*********98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50888	10.252	4	59	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Gene3D	G3DSA:4.10.280.10	8.4E-8	18	62	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Pfam	PF00010	8.5E-5	18	59	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SuperFamily	SSF47459	6.15E-8	18	84	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: 93 aa Download sequence Send to blast
MSSRRSRQAS SSSRISDDQI TDLISKLRQS IPEIRQNRRS NTVSASKVLQ ETCNYIRNLN 60 KEADDLSDRL SQLLETIDPN SPQAAIIRSL ISE

Functional Description ? help Back to Top
Source	Description
UniProt	Atypical and probable non DNA-binding bHLH transcription factor that integrates multiple signaling pathways to regulate cell elongation and plant development. Regulates light responses by binding and inhibiting the activity of the bHLH transcription factor HFR1, a critical regulator of light signaling and shade avoidance. May have a regulatory role in various aspects of gibberellin-dependent growth and development. {ECO:0000269\|PubMed:16527868, ECO:0000269\|PubMed:20305124}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Rsa1.0_00301.1_g00039.1

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Not induced by exogenous gibberellin. {ECO:0000269\|PubMed:16527868}.

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	AK118887	1e-95	AK118887.1 Arabidopsis thaliana At5g15160 mRNA for unknown protein, complete cds, clone: RAFL21-22-D11.
GenBank	BT005460	1e-95	BT005460.1 Arabidopsis thaliana clone U51275 putative bHLH protein (At5g15160) mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_018468931.1	1e-57	PREDICTED: transcription factor PRE2-like
Swissprot	Q9LXG5	6e-46	PRE2_ARATH; Transcription factor PRE2
TrEMBL	A0A1J3GQ62	2e-54	A0A1J3GQ62_NOCCA; Transcription factor PRE2
STRING	Bra006286.1-P	4e-46	(Brassica rapa)
STRING	Bo3g010130.1	4e-46	(Brassica oleracea)
STRING	A0A087G7A1	3e-46	(Arabis alpina)
STRING	XP_006400033.1	3e-46	(Eutrema salsugineum)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM259	28	225

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G15160.1	6e-48	BANQUO 2

Publications ? help Back to Top
Jung S, et al. Synteny conservation between the Prunus genome and both the present and ancestral Arabidopsis genomes. BMC Genomics, 2006. 7: p. 81 [PMID:16615871] Ding Y, et al. Four distinct types of dehydration stress memory genes in Arabidopsis thaliana. BMC Plant Biol., 2013. 13: p. 229 [PMID:24377444] Mao WT, et al. The C-Terminal Sequence and PI motif of the Orchid (Oncidium Gower Ramsey) PISTILLATA (PI) Ortholog Determine its Ability to Bind AP3 Orthologs and Enter the Nucleus to Regulate Downstream Genes Controlling Petal and Stamen Formation. Plant Cell Physiol., 2015. 56(11): p. 2079-99 [PMID:26423960] Ezer D, et al. The G-Box Transcriptional Regulatory Code in Arabidopsis. Plant Physiol., 2017. 175(2): p. 628-640 [PMID:28864470]