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

PGSC0003DMP400006566

Common Name

LOC102592407

Organism

Solanum tuberosum

Taxonomic ID

4113

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Solanoideae; Solaneae; Solanum

Family

MYB_related

Protein Properties

Length: 94aa MW: 10929.2 Da PI: 8.8902

Description

MYB_related family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
PGSC0003DMP400006566	genome	PGSC	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Myb_DNA-binding	27.9	5.5e-09	6	52	3	47
SS-HHHHHHHHHHHHHTTTT...-HHHHHHHHTTTS-HHHHHHHHHHH CS Myb_DNA-binding 3 rWTteEdellvdavkqlGgg...tWktIartmgkgRtlkqcksrwqky 47 W+ +l+ +a + + + +W++ ++ +g g+t++++k+++ k+ PGSC0003DMP400006566 6 TWSHHQNKLFENALAIYDIDtpdRWRKLSKAVG-GKTEEEVKNHYEKL 52 7***************99*********.*********987 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50090	6.597	1	53	IPR017877	Myb-like domain
SMART	SM00717	1.5E-6	3	55	IPR001005	SANT/Myb domain
SuperFamily	SSF46689	2.24E-12	5	61	IPR009057	Homeodomain-like
CDD	cd00167	4.39E-6	6	53	No hit	No description
Pfam	PF00249	9.6E-6	6	52	IPR001005	SANT/Myb domain
Gene3D	G3DSA:1.10.10.60	2.1E-4	27	54	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: 94 aa Download sequence Send to blast
MATNSTWSHH QNKLFENALA IYDIDTPDRW RKLSKAVGGK TEEEVKNHYE KLVEDIKRIE 60 SGNVPLPNYN SGRNNKGHNF MDEEQRLKYL KLQ*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
2cjj_A	6e-29	7	93	11	93	RADIALIS
Search in ModeBase

Functional Description ? help Back to Top
Source	Description
UniProt	Involved in the dorsovental asymmetry of flowers. Promotes dorsal identity. {ECO:0000269\|PubMed:15790677}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	PGSC0003DMP400006566

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Up-regulated by both CYC and DICH. {ECO:0000269\|PubMed:15790677, ECO:0000269\|PubMed:16236768}.

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	CU457811	1e-123	CU457811.8 S.lycopersicum DNA sequence from clone LE_HBa-132M8 on chromosome 4, complete sequence.
GenBank	CU468239	1e-123	CU468239.4 S.lycopersicum DNA sequence from clone SL_MboI-124K5 on chromosome 4, complete sequence.
GenBank	HG975516	1e-123	HG975516.1 Solanum lycopersicum chromosome ch04, complete genome.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_006341944.1	1e-64	PREDICTED: protein RADIALIS-like 3
Swissprot	Q58FS3	9e-29	RAD_ANTMA; Transcription factor RADIALIS
TrEMBL	M0ZW99	3e-63	M0ZW99_SOLTU; Uncharacterized protein
STRING	PGSC0003DMT400009450	6e-64	(Solanum tuberosum)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Asterids	OGEA202	24	231

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G75250.1	2e-31	RAD-like 6

Link Out ? help Back to Top
Phytozome	PGSC0003DMP400006566
Entrez Gene	102592407

Publications ? help Back to Top
Corley SB,Carpenter R,Copsey L,Coen E Floral asymmetry involves an interplay between TCP and MYB transcription factors in Antirrhinum. Proc. Natl. Acad. Sci. U.S.A., 2005. 102(14): p. 5068-73 [PMID:15790677] Costa MM,Fox S,Hanna AI,Baxter C,Coen E Evolution of regulatory interactions controlling floral asymmetry. Development, 2005. 132(22): p. 5093-101 [PMID:16236768] Stevenson CE, et al. Crystallization and preliminary X-ray analysis of the RAD protein from Antirrhinum majus. Acta Crystallogr. Sect. F Struct. Biol. Cryst. Commun., 2005. 61(Pt 10): p. 885-8 [PMID:16511186] Stevenson CE, et al. Crystal structure of the MYB domain of the RAD transcription factor from Antirrhinum majus. Proteins, 2006. 65(4): p. 1041-5 [PMID:17044043] Xu X, et al. Genome sequence and analysis of the tuber crop potato. Nature, 2011. 475(7355): p. 189-95 [PMID:21743474]