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

RrC8926_p1

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: 215aa MW: 24857 Da PI: 8.6167

Description

MYB_related family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
RrC8926_p1	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	53.4	5.9e-17	26	69	1	46
TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHH CS Myb_DNA-binding 1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqk 46 r+++T++E+e+l+ ++ +G++ W+ Iar ++ gRt++ +k++w+ RrC8926_p1 26 RNPFTKDEEERLLASHRIHGNR-WSVIARFFP-GRTDNAVKNHWHV 69 789*****************.*****.*********96 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF46689	2.44E-17	15	73	IPR009057	Homeodomain-like
Gene3D	G3DSA:1.10.10.60	6.7E-19	19	73	IPR009057	Homeodomain-like
PROSITE profile	PS51294	22.433	21	75	IPR017930	Myb domain
SMART	SM00717	6.9E-15	25	73	IPR001005	SANT/Myb domain
Pfam	PF00249	8.5E-14	26	68	IPR001005	SANT/Myb domain
CDD	cd00167	4.67E-12	28	68	No hit	No description

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: 215 aa Download sequence Send to blast
MMCSRGHWRP AEDEKLRELL DPRINRNPFT KDEEERLLAS HRIHGNRWSV IARFFPGRTD 60 NAVKNHWHVI MARRGRELSK LHPRDLGHDG TTVATIGYDG CDKKKRLATA TAINCPRQFS 120 HISHFQLLKE FLTGKIGFCN NNTPINDAIN QTKRPMEFYD FLQVKTNSKK PEVIDNSRKY 180 EEEDDVHEHN HNHNANCVPF IDFLSVGNSA SQGLC

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription factor that confers sensitivity to abscisic acid (ABA) and salt, but tolerance to drought (PubMed:21399993). Regulates secondary cell wall (SCW) biosynthesis, especially in interfascicular and xylary fibers (PubMed:18952777, PubMed:23781226). {ECO:0000269\|PubMed:18952777, ECO:0000269\|PubMed:21399993, ECO:0000269\|PubMed:23781226}.

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: By abscisic acid (PubMed:16463103, PubMed:21399993). Accumulates in response to salt (PubMed:21399993). Triggered by MYB46 and MYB83 in the regulation of secondary cell wall biosynthesis (PubMed:19674407, PubMed:22197883). {ECO:0000269\|PubMed:16463103, ECO:0000269\|PubMed:19674407, ECO:0000269\|PubMed:21399993, ECO:0000269\|PubMed:22197883}.

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_018437706.1	1e-140	PREDICTED: trichome differentiation protein GL1-like
Refseq	XP_018437708.1	1e-140	PREDICTED: trichome differentiation protein GL1-like
Swissprot	Q6R0C4	1e-115	MYB52_ARATH; Transcription factor MYB52
TrEMBL	A0A3N6T6Y6	1e-139	A0A3N6T6Y6_BRACR; Uncharacterized protein
STRING	Bo8g104600.1	1e-138	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM2818	27	69

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G17950.1	1e-111	myb domain protein 52

Publications ? help Back to Top
Duarte JM, et al. Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis. Mol. Biol. Evol., 2006. 23(2): p. 469-78 [PMID:16280546] Cassan-Wang H, et al. Identification of novel transcription factors regulating secondary cell wall formation in Arabidopsis. Front Plant Sci, 2013. 4: p. 189 [PMID:23781226] Shi D, et al. MYB52 Negatively Regulates Pectin Demethylesterification in Seed Coat Mucilage. Plant Physiol., 2018. 176(4): p. 2737-2749 [PMID:29440562]