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

PGSC0003DMP400020253

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

SBP

Protein Properties

Length: 182aa MW: 19382.9 Da PI: 10.329

Description

SBP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
PGSC0003DMP400020253	genome	PGSC	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	SBP	136.5	8e-43	75	150	1	76
--SSTT-----TT--HHHHHTT--HHHHT-S-EEETTEEEEE-TTTSSEEETTT--SS--S-STTTT-------S- CS SBP 1 lCqvegCeadlseakeyhrrhkvCevhskapvvlvsgleqrfCqqCsrfhelsefDeekrsCrrrLakhnerrrkk 76 +CqvegC+adls+ak y++rhkvC +hsk+p+v+v+gleqrfCqqCsrfh+l+efD++krsCrrrLa hnerrrk+ PGSC0003DMP400020253 75 RCQVEGCQADLSDAKAYYSRHKVCGMHSKSPTVVVAGLEQRFCQQCSRFHQLTEFDQGKRSCRRRLACHNERRRKP 150 6*************************************************************************97 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:4.10.1100.10	3.9E-36	69	137	IPR004333	Transcription factor, SBP-box
SuperFamily	SSF103612	3.14E-40	73	154	IPR004333	Transcription factor, SBP-box
PROSITE profile	PS51141	32.12	73	150	IPR004333	Transcription factor, SBP-box
Pfam	PF03110	3.0E-32	76	149	IPR004333	Transcription factor, SBP-box

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0010228	Biological Process	vegetative to reproductive phase transition of meristem
GO:0048653	Biological Process	anther development
GO:2000025	Biological Process	regulation of leaf formation
GO:0005634	Cellular Component	nucleus
GO:0003677	Molecular Function	DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 182 aa Download sequence Send to blast
MELGSVSSSG NSSSSDSLNG LKFGKKIYFG NVGVGVQVKN GSGSSPVTGD GNMPPAPATT 60 KRGRGGLVQG GHPPRCQVEG CQADLSDAKA YYSRHKVCGM HSKSPTVVVA GLEQRFCQQC 120 SRFHQLTEFD QGKRSCRRRL ACHNERRRKP PSGSLFSTHY GNLSSSIFGL IAFLSLSLCL 180 R*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1ul4_A	9e-32	76	149	11	84	squamosa promoter binding protein-like 4
Search in ModeBase

Functional Description ? help Back to Top
Source	Description
UniProt	Trans-acting factor that binds specifically to the consensus nucleotide sequence 5'-TNCGTACAA-3'. {ECO:0000250}.

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00307	DAP	Transfer from AT2G42200	Download

Cis-element ? help Back to Top
Source	Link
PlantRegMap	PGSC0003DMP400020253

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Negatively regulated by microRNAs miR157. {ECO:0000305\|PubMed:12202040}.

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	Retrieve

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	HG975449	0.0	HG975449.1 Solanum pennellii chromosome ch10, complete genome.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_006362236.1	1e-119	PREDICTED: squamosa promoter-binding-like protein 9
Swissprot	Q9M2Q6	2e-47	SPL15_ARATH; Squamosa promoter-binding-like protein 15
TrEMBL	M1ATC1	1e-129	M1ATC1_SOLTU; Uncharacterized protein
STRING	PGSC0003DMT400029751	1e-119	(Solanum tuberosum)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G57920.1	2e-46	squamosa promoter binding protein-like 15

Link Out ? help Back to Top
Phytozome	PGSC0003DMP400020253

Publications ? help Back to Top
Duarte JM, et al. Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis. Mol. Biol. Evol., 2006. 23(2): p. 469-78 [PMID:16280546] Xu X, et al. Genome sequence and analysis of the tuber crop potato. Nature, 2011. 475(7355): p. 189-95 [PMID:21743474] Morea EG, et al. Functional and evolutionary analyses of the miR156 and miR529 families in land plants. BMC Plant Biol., 2016. 16: p. 40 [PMID:26841873] Hyun Y, et al. Multi-layered Regulation of SPL15 and Cooperation with SOC1 Integrate Endogenous Flowering Pathways at the Arabidopsis Shoot Meristem. Dev. Cell, 2016. 37(3): p. 254-66 [PMID:27134142] Xu M, et al. Developmental Functions of miR156-Regulated SQUAMOSA PROMOTER BINDING PROTEIN-LIKE (SPL) Genes in Arabidopsis thaliana. PLoS Genet., 2016. 12(8): p. e1006263 [PMID:27541584]