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

PGSC0003DMP400042637

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: 217aa MW: 24649.3 Da PI: 8.9687

Description

TCP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
PGSC0003DMP400042637	genome	PGSC	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	TCP	98.7	1.1e-30	50	170	3	105
TCP 3 gkkdrhskihTkvggRdRRvRlsaecaarfFdLqdeLGfdkdsktieWLlqqakpaikeltgt..........ssssaseceaesssss 81 g+kdrhsk++T +g+RdRR+Rls+++a++++dLqd+LG+ ++sk ++WLl++ k i+ l+ + ++++++e ++ +++ s PGSC0003DMP400042637 50 GGKDRHSKVCTIRGLRDRRIRLSVPTAIQLYDLQDRLGLSQPSKVVDWLLEATKLDIDTLPPLpvppeyftrfQQPPHEEYSDLQQVRS 138 78*************************************************************44444444444444433333333333 PP TCP 82 asnsssg.........kaaksaakskksqksaa 105 + ++ ++ k + +++++++s+++++ PGSC0003DMP400042637 139 QWFNANSapyldhgknK-SIASNHHEESNQEDN 170 33222225567666532.222222333333333 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF03634	3.1E-27	51	167	IPR005333	Transcription factor, TCP
PROSITE profile	PS51369	28.674	51	109	IPR017887	Transcription factor TCP subgroup

Sequence ? help Back to Top
Protein Sequence Length: 217 aa Download sequence Send to blast
MNSSSGNNFQ TKQESNDSKL SSKTTSAPSS SRQWGVNKNP RIVRVSRTFG GKDRHSKVCT 60 IRGLRDRRIR LSVPTAIQLY DLQDRLGLSQ PSKVVDWLLE ATKLDIDTLP PLPVPPEYFT 120 RFQQPPHEEY SDLQQVRSQW FNANSAPYLD HGKNKSIASN HHEESNQEDN HVFTLGNHRS 180 SNLPAMPFNS YNYQWDDQPN SNLSLELGEG RDKMPL*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5zkt_A	1e-17	56	110	1	55	Putative transcription factor PCF6
5zkt_B	1e-17	56	110	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	PGSC0003DMP400042637

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	HG975442	0.0	HG975442.1 Solanum pennellii chromosome ch03, complete genome.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_006345116.1	1e-149	PREDICTED: transcription factor TCP17
Swissprot	Q9S7W5	8e-45	TCP13_ARATH; Transcription factor TCP13
TrEMBL	M1CAH4	1e-159	M1CAH4_SOLTU; Uncharacterized protein
STRING	PGSC0003DMT400063327	1e-148	(Solanum tuberosum)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G02150.1	1e-46	plastid transcription factor 1

Link Out ? help Back to Top
Phytozome	PGSC0003DMP400042637

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]