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 29751.m001898
Common NameLOC8284128, RCOM_0734420
Organism
Ricinus communis
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Malpighiales; Euphorbiaceae; Acalyphoideae; Acalypheae; Ricinus
Family G2-like
Protein Properties Length: 316aa    MW: 35257.8 Da    PI: 5.8238
Description G2-like family protein
Gene Model
Gene Model ID Type Source Coding Sequence
29751.m001898genomeJCVIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1G2-like93.22.2e-29155208155
        G2-like   1 kprlrWtpeLHerFveaveqLGGsekAtPktilelmkvkgLtlehvkSHLQkYRl 55 
                    +prl+Wtp+LH+rFv++v+ L G+++A+Pkti++lm+v+gLt+e+v+SHLQkYRl
  29751.m001898 155 RPRLVWTPQLHKRFVDVVAYL-GIKNAVPKTIMQLMNVEGLTRENVASHLQKYRL 208
                    59*******************.********************************8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF466891.49E-19152212IPR009057Homeodomain-like
Gene3DG3DSA:1.10.10.606.5E-30154213IPR009057Homeodomain-like
TIGRFAMsTIGR015571.2E-22156208IPR006447Myb domain, plants
PfamPF002494.8E-7158207IPR001005SANT/Myb domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0042753Biological Processpositive regulation of circadian rhythm
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 316 aa     Download sequence    Send to blast
MGEEVKMSEY ESNGVINNNG DDEERVRDWE FGLPTADDLT PLSQPLIPPE LASAFSISPE  60
PHRSIIDVNR ESQNTLLSLR SATGAFSSNK FKSYNNNDDP TAETAVEEIN NNTNNNNDTD  120
QEKLRRIDSG EEADSALRTE NLTGEDPATA RTLKRPRLVW TPQLHKRFVD VVAYLGIKNA  180
VPKTIMQLMN VEGLTRENVA SHLQKYRLYL KRMQGLSSEG PSASDNQLFA STPVPQSLQD  240
NGNSNGNAGE GNGHLGMAVS VPVPYHPGVG PMMTMPMYGM QLGNNNNNHN HNHNHHHHHP  300
YNMIQHRDWS GNNYHM
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5lxu_A3e-33155211157Transcription 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}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00014PBMTransfer from AT3G46640Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMap29751.m001898
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
PlantRegMapRetrieveRetrieve
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_002520534.10.0transcription factor BOA
SwissprotQ9SNB44e-86PCL1_ARATH; Transcription factor LUX
TrEMBLB9S3G50.0B9S3G5_RICCO; DNA binding protein, putative
STRINGXP_002520534.10.0(Ricinus communis)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF69573347
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G46640.32e-81G2-like family protein
Publications ? help Back to Top
  1. 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]