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

RrC21907_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

Protein Properties

Length: 298aa MW: 33143.1 Da PI: 5.5097

Description

MYB family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
RrC21907_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	55.7	1.1e-17	14	61	1	48
TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS Myb_DNA-binding 1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48 +g+WT+eEd++l+ + +++G g W+t +++ g++R++k+c++rw +yl RrC21907_p1 14 KGAWTPEEDQKLIAYLQRHGEGGWRTLPEKAGLKRCGKSCRLRWANYL 61 79********************************************97 PP
2	Myb_DNA-binding	49	1.4e-15	67	111	1	47
TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHH CS Myb_DNA-binding 1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqky 47 rg +++eEd+ +++++++ G++ W++Ia ++ gRt++++k++w++ RrC21907_p1 67 RGEFSPEEDDTIIKLHALKGNK-WAAIATYLA-GRTDNEIKNYWNTN 111 899*****************.*****.*********986 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:1.10.10.60	1.7E-24	5	64	IPR009057	Homeodomain-like
PROSITE profile	PS51294	16.708	9	61	IPR017930	Myb domain
SuperFamily	SSF46689	1.98E-29	11	108	IPR009057	Homeodomain-like
SMART	SM00717	7.4E-13	13	63	IPR001005	SANT/Myb domain
Pfam	PF00249	7.1E-16	14	61	IPR001005	SANT/Myb domain
CDD	cd00167	5.78E-10	16	61	No hit	No description
PROSITE profile	PS51294	25.274	62	116	IPR017930	Myb domain
Gene3D	G3DSA:1.10.10.60	2.8E-25	65	117	IPR009057	Homeodomain-like
SMART	SM00717	3.2E-16	66	114	IPR001005	SANT/Myb domain
Pfam	PF00249	6.0E-15	67	112	IPR001005	SANT/Myb domain
CDD	cd00167	2.23E-11	69	112	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: 298 aa Download sequence Send to blast
MVRTPCCKEE GIRKGAWTPE EDQKLIAYLQ RHGEGGWRTL PEKAGLKRCG KSCRLRWANY 60 LRPDIKRGEF SPEEDDTIIK LHALKGNKWA AIATYLAGRT DNEIKNYWNT NLKKRLKQKG 120 IDPTTHKPIN STDQTRIGPK KLKLSSSGSA RVLNRVASKY AVDLNRDLVT GIIIGNSTTI 180 TDVSQNSEVE NSTITLLNKT STSSGFSDNC SFSDGFTEFF SNEEISDMSM SLDHVGLMEE 240 LKGILSYDNA GAGEIKGSPE ANVSDEMEFL IDYWNVEDDQ DLEKFVSSLD SNTGGVVS

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1a5j_A	1e-26	14	116	7	108	B-MYB
Search in ModeBase

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	111	117	LKKRLKQ

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription factor involved in tryptophan gene activation and in indole-3-acetic acid (IAA) and indolic glucosinolates (IG) biosynthesis. Acts as a direct transcriptional activator of both Trp synthesis genes and Trp secondary metabolism genes. {ECO:0000269\|PubMed:15579661, ECO:0000269\|PubMed:23580754, ECO:0000269\|PubMed:23943862, ECO:0000269\|PubMed:9576939}.

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Up-regulated by herbivory. {ECO:0000269\|PubMed:23943862}.

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	JX946181	0.0	JX946181.1 Eruca vesicaria subsp. sativa MYB34 protein (MYB34-1) mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_018455245.1	0.0	PREDICTED: transcription factor MYB34-like
Swissprot	O64399	1e-148	MYB34_ARATH; Transcription factor MYB34
TrEMBL	A0A0D3E1N5	0.0	A0A0D3E1N5_BRAOL; Uncharacterized protein
STRING	Bo9g014380.1	0.0	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM9331	16	37

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G60890.1	1e-141	myb domain protein 34

Publications ? help Back to Top
Grubb CD,Abel S Glucosinolate metabolism and its control. Trends Plant Sci., 2006. 11(2): p. 89-100 [PMID:16406306] De Schutter K, et al. Arabidopsis WEE1 kinase controls cell cycle arrest in response to activation of the DNA integrity checkpoint. Plant Cell, 2007. 19(1): p. 211-25 [PMID:17209125] Kim K,Jiang K,Teng SL,Feldman LJ,Huang H Using biologically interrelated experiments to identify pathway genes in Arabidopsis. Bioinformatics, 2012. 28(6): p. 815-22 [PMID:22271267] Guo R, et al. Jasmonic acid and glucose synergistically modulate the accumulation of glucosinolates in Arabidopsis thaliana. J. Exp. Bot., 2013. 64(18): p. 5707-19 [PMID:24151308] Benstein RM, et al. Arabidopsis phosphoglycerate dehydrogenase1 of the phosphoserine pathway is essential for development and required for ammonium assimilation and tryptophan biosynthesis. Plant Cell, 2013. 25(12): p. 5011-29 [PMID:24368794] Ding Y, et al. Four distinct types of dehydration stress memory genes in Arabidopsis thaliana. BMC Plant Biol., 2013. 13: p. 229 [PMID:24377444] Frerigmann H,Gigolashvili T MYB34, MYB51, and MYB122 distinctly regulate indolic glucosinolate biosynthesis in Arabidopsis thaliana. Mol Plant, 2014. 7(5): p. 814-28 [PMID:24431192] Frerigmann H,Gigolashvili T Update on the role of R2R3-MYBs in the regulation of glucosinolates upon sulfur deficiency. Front Plant Sci, 2014. 5: p. 626 [PMID:25426131] Frerigmann H,Glawischnig E,Gigolashvili T The role of MYB34, MYB51 and MYB122 in the regulation of camalexin biosynthesis in Arabidopsis thaliana. Front Plant Sci, 2015. 6: p. 654 [PMID:26379682] Frerigmann H, et al. Regulation of Pathogen-Triggered Tryptophan Metabolism in Arabidopsis thaliana by MYB Transcription Factors and Indole Glucosinolate Conversion Products. Mol Plant, 2016. 9(5): p. 682-695 [PMID:26802248] Stahl E, et al. Regulatory and Functional Aspects of Indolic Metabolism in Plant Systemic Acquired Resistance. Mol Plant, 2016. 9(5): p. 662-681 [PMID:26802249] Bulgakov VP,Veremeichik GN,Grigorchuk VP,Rybin VG,Shkryl YN The rolB gene activates secondary metabolism in Arabidopsis calli via selective activation of genes encoding MYB and bHLH transcription factors. Plant Physiol. Biochem., 2016. 102: p. 70-9 [PMID:26913794] Miao H, et al. Glucose enhances indolic glucosinolate biosynthesis without reducing primary sulfur assimilation. Sci Rep, 2016. 6: p. 31854 [PMID:27549907]