PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Rsa1.0_01430.1_g00007.1
Organism
Raphanus sativus
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Raphanus
Family G2-like
Protein Properties Length: 293aa    MW: 32093.8 Da    PI: 5.3477
Description G2-like family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Rsa1.0_01430.1_g00007.1genomeRGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1G2-like941.2e-29137189255
                  G2-like   2 prlrWtpeLHerFveaveqLGGsekAtPktilelmkvkgLtlehvkSHLQkYRl 55 
                              +rl+Wtp+LH+rFv++v++L G ++A+Pkti++lm+v+gLt+e+v+SHLQkYRl
  Rsa1.0_01430.1_g00007.1 137 ARLVWTPQLHKRFVDVVAHL-GVKNAVPKTIMQLMNVEGLTRENVASHLQKYRL 189
                              79******************.9*******************************8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5129410.931131192IPR017930Myb domain
SuperFamilySSF466893.23E-19133193IPR009057Homeodomain-like
Gene3DG3DSA:1.10.10.601.1E-29135194IPR009057Homeodomain-like
TIGRFAMsTIGR015572.9E-23137189IPR006447Myb domain, plants
PfamPF002491.3E-8139188IPR001005SANT/Myb domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0042753Biological Processpositive regulation of circadian rhythm
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 293 aa     Download sequence    Send to blast
MGEEVRMNDV GDRVMEWEMG LPSDEDLASL SYSLVPSNLA MAFSITPEKS RTIHDVNRAS  60
ETTFSTLRGP NTSSSTNIII GVVAAAVEEE EEEEEDRVGS SSPGSDSKKQ KIISEEDEEE  120
GDSGTEDLTN GKTLKRARLV WTPQLHKRFV DVVAHLGVKN AVPKTIMQLM NVEGLTRENV  180
ASHLQKYRLY LKRMQGLTSE GPSSSDKLFS STPVPPQSFQ EHVGVPPPPP PMMQMPVYAH  240
HMGMQGYHHQ NHAHDPYHHG SGGGPANPYM MQQNKFGSVA SYPPVGGGSA NEN
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5lxu_A3e-33136192157Transcription 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
PlantRegMapRsa1.0_01430.1_g00007.1
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_018454023.11e-173PREDICTED: transcription factor LUX-like
RefseqXP_018454028.11e-173PREDICTED: transcription factor LUX-like
SwissprotQ9SNB41e-154PCL1_ARATH; Transcription factor LUX
TrEMBLA0A0D3A8V01e-169A0A0D3A8V0_BRAOL; Uncharacterized protein
TrEMBLA0A3P6FEQ71e-169A0A3P6FEQ7_BRAOL; Uncharacterized protein
STRINGBo1g070860.11e-170(Brassica oleracea)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM40552758
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G46640.21e-141G2-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]