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

PGSC0003DMP400046169

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

TCP

Protein Properties

Length: 167aa MW: 18893.3 Da PI: 10.124

Description

TCP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
PGSC0003DMP400046169	genome	PGSC	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	TCP	98.1	1.6e-30	34	125	2	66
TCP 2 agkkdrhskihTkvggRdRRvRlsaecaarfFdLqdeLGfdkdsktieWLlqqakpaikeltgt......................... 65 g+kdrhsk+ T +g RdRRvRls+++a +++dLqd+LG+d++sk ++WLl++ak++i++l+ + PGSC0003DMP400046169 34 FGGKDRHSKVLTVKGVRDRRVRLSVPTALQLYDLQDKLGLDQPSKVVDWLLNEAKHEIDQLPPLqmppirdqtglpltglrketmvvsd 122 689*************************************************************4444444444444333333332221 PP TCP 66 ..s 66 + PGSC0003DMP400046169 123 edT 125 110 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS51369	29.123	36	94	IPR017887	Transcription factor TCP subgroup
Pfam	PF03634	9.7E-30	36	143	IPR005333	Transcription factor, TCP

Sequence ? help Back to Top
Protein Sequence Length: 167 aa Download sequence Send to blast
MITREVDTSD NKIPKKSSWT SFKDPRIVRV SRAFGGKDRH SKVLTVKGVR DRRVRLSVPT 60 ALQLYDLQDK LGLDQPSKVV DWLLNEAKHE IDQLPPLQMP PIRDQTGLPL TGLRKETMVV 120 SDEDTVKLDA RNLDLKDNSN NNNNSNSFSF GLYQNNHSSQ SGIFKY*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5zkt_A	7e-20	41	95	1	55	Putative transcription factor PCF6
5zkt_B	7e-20	41	95	1	55	Putative transcription factor PCF6
Search in ModeBase

Functional Description ? help Back to Top
Source	Description
UniProt	Plays a pivotal role in the control of morphogenesis of shoot organs by negatively regulating the expression of boundary-specific genes such as CUC genes, probably through the induction of miRNA (e.g. miR164). Binds to the 3'-ACC-5' repeats in the light-responsive promoter (LRP) of psbD, and activates its transcription. Participates in ovule develpment (PubMed:25378179). {ECO:0000269\|PubMed:11161017, ECO:0000269\|PubMed:17307931, ECO:0000269\|PubMed:25378179}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	PGSC0003DMP400046169

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	AC246813	1e-161	AC246813.7 Solanum lycopersicum strain Heinz 1706 chromosome 2 clone slm-33h20 map 2, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_006365661.1	1e-114	PREDICTED: transcription factor TCP13-like
Swissprot	Q9S7W5	7e-41	TCP13_ARATH; Transcription factor TCP13
TrEMBL	M1CIV7	1e-117	M1CIV7_SOLTU; Uncharacterized protein
STRING	PGSC0003DMT400068332	1e-113	(Solanum tuberosum)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G02150.1	6e-43	plastid transcription factor 1

Link Out ? help Back to Top
Phytozome	PGSC0003DMP400046169

Publications ? help Back to Top
Skinner MK,Rawls A,Wilson-Rawls J,Roalson EH Basic helix-loop-helix transcription factor gene family phylogenetics and nomenclature. Differentiation, 2010. 80(1): p. 1-8 [PMID:20219281] Xu X, et al. Genome sequence and analysis of the tuber crop potato. Nature, 2011. 475(7355): p. 189-95 [PMID:21743474] Yamburenko MV,Zubo YO,Börner T Abscisic acid affects transcription of chloroplast genes via protein phosphatase 2C-dependent activation of nuclear genes: repression by guanosine-3'-5'-bisdiphosphate and activation by sigma factor 5. Plant J., 2015. 82(6): p. 1030-41 [PMID:25976841] Koyama T,Sato F,Ohme-Takagi M Roles of miR319 and TCP Transcription Factors in Leaf Development. Plant Physiol., 2017. 175(2): p. 874-885 [PMID:28842549]