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 PGSC0003DMP400052786
Common NameLOC102600588
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 G2-like
Protein Properties Length: 315aa    MW: 35326.4 Da    PI: 6.0862
Description G2-like family protein
Gene Model
Gene Model ID Type Source Coding Sequence
PGSC0003DMP400052786genomePGSCView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1G2-like90.51.5e-28151203255
               G2-like   2 prlrWtpeLHerFveaveqLGGsekAtPktilelmkvkgLtlehvkSHLQkYRl 55 
                            rl+Wtp+LH+rF+e+v++L G++ A+Pkti++lm+v+gLt+e+v+SHLQkYRl
  PGSC0003DMP400052786 151 SRLVWTPQLHKRFIEVVAHL-GIKGAVPKTIMQLMNVEGLTRENVASHLQKYRL 203
                           79******************.9*******************************8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5129412.386147206IPR017930Myb domain
SuperFamilySSF466891.2E-18147207IPR009057Homeodomain-like
Gene3DG3DSA:1.10.10.601.1E-28148208IPR009057Homeodomain-like
TIGRFAMsTIGR015574.2E-23151203IPR006447Myb domain, plants
PfamPF002492.4E-8153202IPR001005SANT/Myb domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 315 aa     Download sequence    Send to blast
MGEEVNLTDY EYSGGNDDRL LWEVGLPDVD DLTPLTLQLI PSELAAAFRI SPELSKTMTD  60
VNRASQNTFS SLQRWHSQDM ASMNNSYFKP FSYERTREET VTERDETDLI REGSDPRKLR  120
RVESGGTEEA DSSLCNENFA DDSSAKTPKR SRLVWTPQLH KRFIEVVAHL GIKGAVPKTI  180
MQLMNVEGLT RENVASHLQK YRLYTKRMQP NEGPSSSDHL FTSTPATESM RESSEGGHLR  240
NTNGHMATPT LMPYQPQMVP MPMMGMPNGG HVGMPVGYGG GPPLGFHHHY NMVQQRDWSG  300
NNFGYYHPVA SNDK*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5lxu_A2e-30150206157Transcription factor LUX
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor that is essential for the generation of the circadian clock oscillation. Is necessary for activation of CCA1 and LHY expression. Is coregulated with TOC1 and seems to be repressed by CCA1 and LHY by direct binding of these proteins to the evening element in the LUX promoter. Directly regulates the expression of PRR9, a major component of the morning transcriptional feedback circuit, by binding specific sites on PRR9 promoter. Binds to its own promoter, inducing a negative auto-regulatory feedback loop within the core clock. Binds to ELF3 and associates with ELF4 in a diurnal complex which is required for the expression of the growth-promoting transcription factors PIF4 and PIF5 and subsequent hypocotyl growth in the early evening. {ECO:0000269|PubMed:16006522, ECO:0000269|PubMed:16164597, ECO:0000269|PubMed:21236673, ECO:0000269|PubMed:21753751, ECO:0000269|PubMed:22311777}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapPGSC0003DMP400052786
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Circadian oscillation with peaks at subjective dusk. {ECO:0000269|PubMed:16006522, ECO:0000269|PubMed:16164597, ECO:0000269|PubMed:17132630, ECO:0000269|PubMed:21753751}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAB2190710.0AB219071.1 Solanum tuberosum StPCL1 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006350785.10.0PREDICTED: transcription factor PCL1-like
RefseqXP_006350786.10.0PREDICTED: transcription factor PCL1-like
SwissprotQ9SNB44e-67PCL1_ARATH; Transcription factor LUX
TrEMBLM1CZ610.0M1CZ61_SOLTU; Uncharacterized protein
STRINGPGSC0003DMT4000779790.0(Solanum tuberosum)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G46640.24e-61G2-like family protein
Publications ? help Back to Top
  1. Onai K,Ishiura M
    PHYTOCLOCK 1 encoding a novel GARP protein essential for the Arabidopsis circadian clock.
    Genes Cells, 2005. 10(10): p. 963-72
    [PMID:16164597]
  2. Xu X, et al.
    Genome sequence and analysis of the tuber crop potato.
    Nature, 2011. 475(7355): p. 189-95
    [PMID:21743474]
  3. Higham CF,Husmeier D
    A Bayesian approach for parameter estimation in the extended clock gene circuit of Arabidopsis thaliana.
    BMC Bioinformatics, 2013. 14 Suppl 10: p. S3
    [PMID:24267177]