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

RrC504_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

Protein Properties

Length: 327aa MW: 36736.8 Da PI: 6.5725

Description

MYB family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
RrC504_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	56.4	6.9e-18	14	61	1	48
TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS Myb_DNA-binding 1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48 +g+WT+eEd++l+ +v+ +G g W+t + + g++R++k+c++rw +yl RrC504_p6 14 KGAWTQEEDQKLIAYVQHHGEGGWRTLPDKAGLKRCGKSCRLRWANYL 61 79********************************************97 PP
2	Myb_DNA-binding	54.5	2.7e-17	67	111	1	47
TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHH CS Myb_DNA-binding 1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqky 47 rg +++ E++ ++++++ +G++ W++Iar+++ gRt++++k++w+++ RrC504_p6 67 RGEFSQKEEDSIINLHAIHGNK-WSAIARRLP-GRTDNEIKNHWNTH 111 899*****************.*****.**********97 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:1.10.10.60	3.3E-24	5	64	IPR009057	Homeodomain-like
PROSITE profile	PS51294	17.783	9	61	IPR017930	Myb domain
SuperFamily	SSF46689	1.5E-29	11	108	IPR009057	Homeodomain-like
SMART	SM00717	3.4E-13	13	63	IPR001005	SANT/Myb domain
Pfam	PF00249	9.4E-16	14	61	IPR001005	SANT/Myb domain
CDD	cd00167	1.27E-9	16	61	No hit	No description
PROSITE profile	PS51294	25.543	62	116	IPR017930	Myb domain
Gene3D	G3DSA:1.10.10.60	7.6E-26	65	117	IPR009057	Homeodomain-like
SMART	SM00717	5.2E-16	66	114	IPR001005	SANT/Myb domain
Pfam	PF00249	2.1E-15	67	111	IPR001005	SANT/Myb domain
CDD	cd00167	2.19E-11	69	112	No hit	No description

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0009625	Biological Process	response to insect
GO:0009506	Cellular Component	plasmodesma
GO:0003677	Molecular Function	DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 327 aa Download sequence Send to blast
MVRTPCCRAE GLKKGAWTQE EDQKLIAYVQ HHGEGGWRTL PDKAGLKRCG KSCRLRWANY 60 LRPDIKRGEF SQKEEDSIIN LHAIHGNKWS AIARRLPGRT DNEIKNHWNT HIKKRLIKKG 120 IDPLTHKSLD HPETLPDKSI GHQEDDDQKS NNNKSLASPS ARFLNKVARF GKRINHSALS 180 DIIGSGGPFT SHTTPTTSAS ECGKSTSSSS TPNSSNRQMI LDATTTPTTS TSTFSNDASA 240 PLMYDNIFDD IDDMTGFSSR FLNDIVSHDD EDFLMLDESC SENTLFTEEL TMILQEGTTK 300 TTFNDRHLKL INEVDDYSFE GIDNWFG

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1a5j_A	2e-27	12	116	5	108	B-MYB
Search in ModeBase

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription factor involved in glucosinolates biosynthesis. {ECO:0000269\|PubMed:23580754, 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	AC189400	0.0	AC189400.2 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrB056L15, complete sequence.
GenBank	FJ584300	0.0	FJ584300.1 Brassica rapa subsp. pekinensis MYB domain protein 122 pseudogene, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_018444137.1	0.0	PREDICTED: transcription factor MYB122-like
Swissprot	Q9C9C8	1e-148	MY122_ARATH; Transcription factor MYB122
TrEMBL	A0A397YRF0	0.0	A0A397YRF0_BRACM; Uncharacterized protein
TrEMBL	M4DHG2	0.0	M4DHG2_BRARP; Uncharacterized protein
STRING	Bra015939.1-P	0.0	(Brassica rapa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM4	28	2646

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G74080.1	1e-144	myb domain protein 122

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] 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] 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] Peskan-Berghöfer T, et al. Sustained exposure to abscisic acid enhances the colonization potential of the mutualist fungus Piriformospora indica on Arabidopsis thaliana roots. New Phytol., 2015. 208(3): p. 873-86 [PMID:26075497] 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] Xu J, et al. Pathogen-Responsive MPK3 and MPK6 Reprogram the Biosynthesis of Indole Glucosinolates and Their Derivatives in Arabidopsis Immunity. Plant Cell, 2016. 28(5): p. 1144-62 [PMID:27081184] Miao H, et al. Glucose enhances indolic glucosinolate biosynthesis without reducing primary sulfur assimilation. Sci Rep, 2016. 6: p. 31854 [PMID:27549907]