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

PGSC0003DMP400056302

Common Name

LOC107061001

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: 86aa MW: 9574.7 Da PI: 9.5336

Description

MYB_related family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
PGSC0003DMP400056302	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	29	2.4e-09	12	56	2	44
SSS-HHHHHHHHHHHHHTTTT...-HHHHHHHHTTTS-HHHHHHHH CS Myb_DNA-binding 2 grWTteEdellvdavkqlGgg...tWktIartmgkgRtlkqcksrw 44 g+WT + + +a + ++ +W+ +a+ +g g+t++++k ++ PGSC0003DMP400056302 12 GSWTDKQNKAFEKALSVYDKEtrdRWSNVAKAVG-GKTAEEVKRHY 56 89***************99*********.********9 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50090	6.98	6	60	IPR017877	Myb-like domain
Gene3D	G3DSA:1.10.10.60	1.9E-5	7	61	IPR009057	Homeodomain-like
SMART	SM00717	2.8E-8	10	62	IPR001005	SANT/Myb domain
Pfam	PF00249	5.8E-7	12	56	IPR001005	SANT/Myb domain
SuperFamily	SSF46689	9.72E-13	12	67	IPR009057	Homeodomain-like
CDD	cd00167	1.06E-6	14	60	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: 86 aa Download sequence Send to blast
MSSMSSQHGS SGSWTDKQNK AFEKALSVYD KETRDRWSNV AKAVGGKTAE EVKRHYEILL 60 RDIFFIDHGM VPFPKYKTTG GTTSD*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
2cjj_A	1e-33	4	82	1	79	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	PGSC0003DMP400056302

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	HG975449	1e-100	HG975449.1 Solanum pennellii chromosome ch10, complete genome.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_015165138.1	3e-58	PREDICTED: protein RADIALIS-like 1
Swissprot	Q58FS3	2e-33	RAD_ANTMA; Transcription factor RADIALIS
TrEMBL	M1D7N9	7e-57	M1D7N9_SOLTU; Uncharacterized protein
STRING	PGSC0003DMT400084268	1e-57	(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
AT4G39250.1	9e-34	RAD-like 1

Link Out ? help Back to Top
Phytozome	PGSC0003DMP400056302
Entrez Gene	107061001

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]