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

RrC406_p6

Organism

Raphanus raphanistrum

Taxonomic ID

109996

Taxonomic Lineage

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

Family

MYB_related

Protein Properties

Length: 195aa MW: 21673.2 Da PI: 7.5984

Description

MYB_related family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
RrC406_p6	genome	MSU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Myb_DNA-binding	37.8	4.5e-12	2	34	11	45
HHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHH CS Myb_DNA-binding 11 llvdavkqlGggtWktIartmgkgRtlkqcksrwq 45 +l+ a+k+ G++ W+ Iar+++ gRt++ +k++w+ RrC406_p6 2 ILISAHKEIGNK-WAEIARKLP-GRTENTIKNHWN 34 699*******.*****.*********8 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS51294	18.1	1	41	IPR017930	Myb domain
SMART	SM00717	0.0024	1	39	IPR001005	SANT/Myb domain
CDD	cd00167	2.55E-7	2	37	No hit	No description
Pfam	PF00249	8.0E-10	2	34	IPR001005	SANT/Myb domain
SuperFamily	SSF46689	2.03E-10	2	46	IPR009057	Homeodomain-like
Gene3D	G3DSA:1.10.10.60	8.8E-14	2	35	IPR009057	Homeodomain-like

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0003677	Molecular Function	DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 195 aa Download sequence Send to blast
MILISAHKEI GNKWAEIARK LPGRTENTIK NHWNATKRRQ YSRRSKGKDE TSLAICSSTL 60 QNYIRSVTYN DDTLMTSATF HANANENTKF SPKHMRGKGK VLTAAASDYA KNNDHENENE 120 CKYIVDGVMN LGLDDGKNTS SSAVTSTSGS TSRPGSGLTV EFDESMTDTW MVMHGCDEVM 180 MNEIALLELI SDGRR

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1idy_A	3e-13	2	40	15	53	MOUSE C-MYB DNA-BINDING DOMAIN REPEAT 3
1idz_A	3e-13	2	40	15	53	MOUSE C-MYB DNA-BINDING DOMAIN REPEAT 3
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Functional Description ? help Back to Top
Source	Description
UniProt	Transcription activator that recognizes the motif 5'-TAACGG-3' in the promoter of endosperm-induced genes (PubMed:27681170, PubMed:25194028, PubMed:19066902). Promotes vegetative-to-embryonic transition and the formation of somatic embryos from root explants in a WUS-independent manner but via the expression of embryonic genes (e.g. LEC1, LEC2, FUS3 and WUS) (PubMed:18695688). May play an important role during embryogenesis and seed maturation (PubMed:19066902, PubMed:25194028). Together with MYB115, activates the transcription of S-ACP-DES2/AAD2 and S-ACP-DES3/AAD3 thus promoting the biosynthesis of omega-7 monounsaturated fatty acid in seed endosperm (PubMed:27681170). Regulates negatively maturation genes in the endosperm (PubMed:25194028). {ECO:0000269\|PubMed:18695688, ECO:0000269\|PubMed:19066902, ECO:0000269\|PubMed:25194028, ECO:0000269\|PubMed:27681170}.

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Induced by LEC2. {ECO:0000269\|PubMed:25194028}.

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	AC189633	2e-95	AC189633.2 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrS004A14, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_018482289.1	1e-125	PREDICTED: uncharacterized protein LOC108853370
Swissprot	Q9LVW4	2e-77	MY118_ARATH; Transcription factor MYB118
TrEMBL	A0A3P5YY30	8e-96	A0A3P5YY30_BRACM; Uncharacterized protein
TrEMBL	M4E943	8e-96	M4E943_BRARP; Uncharacterized protein
STRING	Bra025299.1-P	1e-96	(Brassica rapa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM6052	26	43

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G27785.1	2e-78	myb domain protein 118

Publications ? help Back to Top
Troncoso-Ponce MA, et al. Transcriptional Activation of Two Delta-9 Palmitoyl-ACP Desaturase Genes by MYB115 and MYB118 Is Critical for Biosynthesis of Omega-7 Monounsaturated Fatty Acids in the Endosperm of Arabidopsis Seeds. Plant Cell, 2016. 28(10): p. 2666-2682 [PMID:27681170] Ettaki H, et al. Overexpression of MYB115, AAD2, or AAD3 in Arabidopsis thaliana seeds yields contrasting omega-7 contents. PLoS ONE, 2018. 13(1): p. e0192156 [PMID:29381741]