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

RrC9952_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: 242aa MW: 27611.2 Da PI: 6.2914

Description

MYB family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
RrC9952_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	52.4	1.2e-16	10	57	1	48
TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS Myb_DNA-binding 1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48 +g+WT+eEd ll ++v ++G g W +++++ g++R++k+c++rw++yl RrC9952_p1 10 KGAWTAEEDYLLRECVDKFGEGKWYLVPARAGLNRCRKSCRLRWLNYL 57 79********************************************97 PP
2	Myb_DNA-binding	47.2	5.1e-15	63	108	1	48
TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS Myb_DNA-binding 1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48 rg+ + +E +ll +++k+lG++ W++Ia +++ gRt++++k++w++y+ RrC9952_p1 63 RGKLSSDEVDLLSRLHKLLGNR-WSLIAGRLP-GRTANDIKNYWNTYM 108 78999***************.*****.***********97 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS51294	24.434	5	61	IPR017930	Myb domain
Gene3D	G3DSA:1.10.10.60	6.9E-21	7	60	IPR009057	Homeodomain-like
SuperFamily	SSF46689	5.99E-28	7	104	IPR009057	Homeodomain-like
SMART	SM00717	1.7E-13	9	59	IPR001005	SANT/Myb domain
Pfam	PF00249	6.0E-16	10	57	IPR001005	SANT/Myb domain
CDD	cd00167	2.93E-9	12	57	No hit	No description
Gene3D	G3DSA:1.10.10.60	1.8E-21	61	111	IPR009057	Homeodomain-like
PROSITE profile	PS51294	18.58	62	112	IPR017930	Myb domain
SMART	SM00717	2.5E-13	62	110	IPR001005	SANT/Myb domain
Pfam	PF00249	2.3E-13	63	107	IPR001005	SANT/Myb domain
CDD	cd00167	2.00E-9	67	108	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: 242 aa Download sequence Send to blast
MDALSFRLRK GAWTAEEDYL LRECVDKFGE GKWYLVPARA GLNRCRKSCR LRWLNYLKPN 60 IKRGKLSSDE VDLLSRLHKL LGNRWSLIAG RLPGRTANDI KNYWNTYMSK KPDPFCKTEK 120 KERNPTGSET TPAQKFDVIK PQPRSFCNNN SLSHVNGLPE VDIDDGITCN KADEKYEHVE 180 NLMDAKSMWW ENLLVEIGGV NAVDPAAMDT DEAGTSLMNS SSSVFDIEQL WSLFNEETGQ 240 LD

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1a5j_A	7e-24	8	113	5	109	B-MYB
Search in ModeBase

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription activator, when associated with BHLH12/MYC1, EGL3, or GL3. Promotes the synthesis of phenylpropanoid-derived compounds such as anthocyanins. {ECO:0000269\|PubMed:11148285, ECO:0000269\|PubMed:15361138}.

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: By sucrose, nitrogen deficiency, ethylene, UV light and drought. {ECO:0000269\|PubMed:17053893, ECO:0000269\|PubMed:9839469}.

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_018461613.1	1e-148	PREDICTED: transcription factor MYB114-like
Swissprot	Q9ZTC3	3e-91	MYB90_ARATH; Transcription factor MYB90
TrEMBL	E5D8F5	1e-106	E5D8F5_BRAOB; MYB2
STRING	Bo6g100940.1	1e-107	(Brassica oleracea)

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
AT1G66390.1	1e-93	myb domain protein 90

Publications ? help Back to Top
Ilk N,Ding J,Ihnatowicz A,Koornneef M,Reymond M Natural variation for anthocyanin accumulation under high-light and low-temperature stress is attributable to the ENHANCER OF AG-4 2 (HUA2) locus in combination with PRODUCTION OF ANTHOCYANIN PIGMENT1 (PAP1) and PAP2. New Phytol., 2015. 206(1): p. 422-35 [PMID:25425527] Li T, et al. Jasmonic acid enhancement of anthocyanin accumulation is dependent on phytochrome A signaling pathway under far-red light in Arabidopsis. Biochem. Biophys. Res. Commun., 2014. 454(1): p. 78-83 [PMID:25450360] Nemie-Feyissa D,Heidari B,Blaise M,Lillo C Analysis of interactions between heterologously produced bHLH and MYB proteins that regulate anthocyanin biosynthesis: quantitative interaction kinetics by Microscale Thermophoresis. Phytochemistry, 2015. 111: p. 21-6 [PMID:25659750] Bac-Molenaar JA,Fradin EF,Rienstra JA,Vreugdenhil D,Keurentjes JJ GWA Mapping of Anthocyanin Accumulation Reveals Balancing Selection of MYB90 in Arabidopsis thaliana. PLoS ONE, 2015. 10(11): p. e0143212 [PMID:26588092] Mondal SK,Roy S Genome-wide sequential, evolutionary, organizational and expression analyses of phenylpropanoid biosynthesis associated MYB domain transcription factors in Arabidopsis. J. Biomol. Struct. Dyn., 2018. 36(6): p. 1577-1601 [PMID:28490275] Li N, et al. The heterologous expression of Arabidopsis PAP2 induces anthocyanin accumulation and inhibits plant growth in tomato. Funct. Integr. Genomics, 2018. 18(3): p. 341-353 [PMID:29372433]