PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
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(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID PGSC0003DMP400056849
Common NameLOC102594116
Organism
Solanum tuberosum
Taxonomic ID
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: 134aa    MW: 15111.3 Da    PI: 9.4476
Description SBP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
PGSC0003DMP400056849genomePGSCView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SBP131.72.5e-412094276
                          -SSTT-----TT--HHHHHTT--HHHHT-S-EEETTEEEEE-TTTSSEEETTT--SS--S-STTTT-------S- CS
                   SBP  2 CqvegCeadlseakeyhrrhkvCevhskapvvlvsgleqrfCqqCsrfhelsefDeekrsCrrrLakhnerrrkk 76
                          Cqve+Ce++l +ak+yh+rhkvC+vh+kap vl++gl+qrfCqqCsrfhelsefD +k+sCr rL++hn+rrrk+
  PGSC0003DMP400056849 20 CQVEKCEVNLDDAKKYHKRHKVCQVHAKAPIVLLAGLRQRFCQQCSRFHELSEFDGTKKSCRLRLDGHNKRRRKT 94
                          *************************************************************************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:4.10.1100.102.3E-311781IPR004333Transcription factor, SBP-box
PROSITE profilePS5114130.3421794IPR004333Transcription factor, SBP-box
SuperFamilySSF1036123.66E-371896IPR004333Transcription factor, SBP-box
PfamPF031101.7E-322093IPR004333Transcription factor, SBP-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 134 aa     Download sequence    Send to blast
MANNDGGGGV GVVVQVKHYC QVEKCEVNLD DAKKYHKRHK VCQVHAKAPI VLLAGLRQRF  60
CQQCSRFHEL SEFDGTKKSC RLRLDGHNKR RRKTPLAIEM EDNQCRLING EASPHMDMTL  120
SSRNTIHTAD ISR*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1ul4_A7e-3220931184squamosa promoter binding protein-like 4
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtProbable transcriptional factor. Binds to the promoter of the SQUAMOSA gene.
UniProtTrans-acting factor that binds specifically to the consensus nucleotide sequence 5'-TNCGTACAA-3' (By similarity). May be involved in panicle development. {ECO:0000250}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapPGSC0003DMP400056849
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Negatively regulated by microRNAs miR156b and miR156h. {ECO:0000305|PubMed:16861571}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankHG9755195e-86HG975519.1 Solanum lycopersicum chromosome ch07, complete genome.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006348264.13e-96PREDICTED: squamosa promoter-binding-like protein 3
SwissprotQ387411e-34SBP1_ANTMA; Squamosa promoter-binding protein 1
SwissprotQ6Z4615e-34SPL13_ORYSJ; Squamosa promoter-binding-like protein 13
TrEMBLM1D8X07e-95M1D8X0_SOLTU; Uncharacterized protein
STRINGPGSC0003DMT4000851741e-95(Solanum tuberosum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA74924105
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G33810.11e-35squamosa promoter binding protein-like 3
Publications ? help Back to Top
  1. Xu X, et al.
    Genome sequence and analysis of the tuber crop potato.
    Nature, 2011. 475(7355): p. 189-95
    [PMID:21743474]
  2. Klein J,Saedler H,Huijser P
    A new family of DNA binding proteins includes putative transcriptional regulators of the Antirrhinum majus floral meristem identity gene SQUAMOSA.
    Mol. Gen. Genet., 1996. 250(1): p. 7-16
    [PMID:8569690]