PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Previous version: v3.0 v4.0
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Neem_1793_f_14
Organism
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Sapindales; Meliaceae; Azadirachta
Family G2-like
Protein Properties Length: 274aa    MW: 30512.6 Da    PI: 4.9758
Description G2-like family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Neem_1793_f_14genomeNGDView Nucleic Acid
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1G2-like95.63.9e-30170223155
         G2-like   1 kprlrWtpeLHerFveaveqLGGsekAtPktilelmkvkgLtlehvkSHLQkYRl 55 
                     +prl+Wtp+LH+rFv++v++L G+++A+Pkti++lm+v+gLt+e+v+SHLQkYRl
  Neem_1793_f_14 170 RPRLVWTPQLHKRFVDVVAHL-GIKNAVPKTIMQLMNVEGLTRENVASHLQKYRL 223
                     59*******************.********************************8 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF466891.18E-19167227IPR009057Homeodomain-like
PROSITE profilePS5129410.061167226IPR017930Myb domain
Gene3DG3DSA:1.10.10.602.6E-30169228IPR009057Homeodomain-like
TIGRFAMsTIGR015571.2E-23171223IPR006447Myb domain, plants
PfamPF002494.4E-8173222IPR001005SANT/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: 274 aa     Download sequence    Send to blast
MGEEVKMTDY EPTDNGENNV DEERVFEWEM GLPNGEDLTP LSQSLIPPEL ASAFSISPLP  60
YRTVLDVNRA SQGTLSSIRG SHSHSLSSTN NNNIKSFTET RDPMVLETDE ADQNGSETRD  120
PMVLETDEAD QNGSGSDSRK SRKPDSTEEA DSALRTENSN EDPSARTLKR PRLVWTPQLH  180
KRFVDVVAHL GIKNAVPKTI MQLMNVEGLT RENVASHLQK YRLYLKRMQG LSNDDPSSSD  240
HQLFASTPKE WSVNKHGHGS VVSYPHHMAP SGDK
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5lxu_A5e-35170226157Transcription 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
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}.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006424880.11e-124transcription factor LUX
RefseqXP_006488371.11e-124transcription factor LUX
SwissprotQ9SNB42e-81PCL1_ARATH; Transcription factor LUX
TrEMBLA0A067FZK31e-126A0A067FZK3_CITSI; Uncharacterized protein
STRINGXP_006488371.11e-124(Citrus sinensis)
STRINGXP_006424879.11e-124(Citrus clementina)
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
AT3G46640.24e-75G2-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]