PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

PlantRegMap/PlantTFDB v5.0

Plant Transcription Factor Database

Transcription Factor Information

Basic Information | Signature Domain | Sequence |

Basic Information? help Back to Top

TF ID

Lus10040780

Organism

Linum usitatissimum

Taxonomic ID

4006

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Malpighiales; Linaceae; Linum

Family

G2-like

Protein Properties

Length: 203aa MW: 22085.7 Da PI: 8.7733

Description

G2-like family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Lus10040780	genome	BGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	G2-like	92.9	2.6e-29	30	82	2	55
G2-like 2 prlrWtpeLHerFveaveqLGGsekAtPktilelmkvkgLtlehvkSHLQkYRl 55 +rl+Wtp+LH+rFv++v+ L G ++A+Pkti++lm+v+gLt+e+v+SHLQkYRl Lus10040780 30 ARLVWTPQLHKRFVDVVAYL-GVKNAVPKTIMQLMNVEGLTRENVASHLQKYRL 82 79****************.9*****************************8 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS51294	9.296	24	85	IPR017930	Myb domain
SuperFamily	SSF46689	1.97E-19	27	86	IPR009057	Homeodomain-like
Gene3D	G3DSA:1.10.10.60	8.8E-30	28	87	IPR009057	Homeodomain-like
TIGRFAMs	TIGR01557	1.1E-22	30	82	IPR006447	Myb domain, plants
Pfam	PF00249	5.9E-8	32	81	IPR001005	SANT/Myb domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0042753	Biological Process	positive regulation of circadian rhythm
GO:0005634	Cellular Component	nucleus
GO:0003677	Molecular Function	DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 203 aa Download sequence Send to blast
MRKLDSEEAD SVLRPENSTD DPSGKALKRA RLVWTPQLHK RFVDVVAYLG VKNAVPKTIM 60 QLMNVEGLTR ENVASHLQKY RLYLKRMQGL STDGPSSSDQ LFASTPPPPS LQESGGVGGG 120 GGGGGGGGVP MPSPYQQVAA DAMMPGSMYG HMGIQQMGSN HHYHHYHHHH GFDRNAQYNN 180 YGSVVSFPQH HHPHQVAPND NM*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5lxu_A	1e-32	29	85	1	57	Transcription factor LUX
Search in ModeBase

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription 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
MP00014	PBM	Transfer from AT3G46640	Download

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Lus10040780

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: 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
PlantRegMap	Retrieve	Retrieve

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_021642585.1	2e-77	transcription factor LUX-like
Swissprot	Q9SNB4	3e-55	PCL1_ARATH; Transcription factor LUX
TrEMBL	A0A251M2V0	3e-75	A0A251M2V0_MANES; Uncharacterized protein
STRING	Lus10040780	1e-147	(Linum usitatissimum)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF6957	33	47

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G46640.3	8e-54	G2-like family protein

Link Out ? help Back to Top
Phytozome	Lus10040780

Publications ? help Back to Top
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]