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

676777694

Organism

Sisymbrium irio

Taxonomic ID

3730

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Sisymbrieae; Sisymbrium

Family

G2-like

Protein Properties

Length: 278aa MW: 30096.6 Da PI: 6.8444

Description

G2-like family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
676777694	genome	VEGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	G2-like	95.5	4e-30	93	146	1	55
G2-like 1 kprlrWtpeLHerFveaveqLGGsekAtPktilelmkvkgLtlehvkSHLQkYRl 55 +prl+Wtp+LH+rFv++v++L G+++A+Pkti++lm+v+gLt+e+v+SHLQkYRl 676777694 93 RPRLVWTPQLHKRFVDVVAHL-GIKNAVPKTIMQLMNVEGLTRENVASHLQKYRL 146 59*****************.******************************8 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS51294	10.252	88	149	IPR017930	Myb domain
SuperFamily	SSF46689	1.25E-19	90	150	IPR009057	Homeodomain-like
Gene3D	G3DSA:1.10.10.60	2.7E-30	92	151	IPR009057	Homeodomain-like
TIGRFAMs	TIGR01557	1.2E-23	94	146	IPR006447	Myb domain, plants
Pfam	PF00249	4.5E-8	96	145	IPR001005	SANT/Myb domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0003677	Molecular Function	DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 278 aa Download sequence Send to blast
MGEEVRMMSD YDVSGDGDRV LEWEMGLPSD EDLASLSYSL IPPNLALAFS ITPEKNRTIQ 60 DVNRASETTL SSLRSGSSGD SGTEDPTGKT LKRPRLVWTP QLHKRFVDVV AHLGIKNAVP 120 KTIMQLMNVE GLTRENVASH LQKYRLYLKR MQGLTTEGPS PSDKLFSSTP VPPEIGGGVN 180 NGNGQGSGSG GGHVGVPIPY GAPQQQQTMM QMPVFAHHMG MQGYHHQSHG HDPYHHHQQH 240 HGSGGHGGFE GNPYMMQQNK FGSMASYPSV GGGSANEN

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5lxu_A	2e-35	93	149	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}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	676777694

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	-

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AB206576	2e-81	AB206576.1 Arabidopsis thaliana PCL1 gene for PHYTOCLOCK 1, complete cds.
GenBank	AK227686	2e-81	AK227686.1 Arabidopsis thaliana mRNA for hypothetical protein, complete cds, clone: RAFL14-26-J19.
GenBank	AL133314	2e-81	AL133314.1 Arabidopsis thaliana DNA chromosome 3, BAC clone F12A12.
GenBank	BT006425	2e-81	BT006425.1 Arabidopsis thaliana At3g46640 gene, complete cds.
GenBank	CP002686	2e-81	CP002686.1 Arabidopsis thaliana chromosome 3, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	NP_001030823.1	1e-148	Homeodomain-like superfamily protein
Refseq	NP_190248.1	1e-148	Homeodomain-like superfamily protein
Swissprot	Q9SNB4	1e-149	PCL1_ARATH; Transcription factor LUX
TrEMBL	A0A0D3BHL0	1e-146	A0A0D3BHL0_BRAOL; Uncharacterized protein
TrEMBL	A0A3P6AT61	1e-146	A0A3P6AT61_BRAOL; Uncharacterized protein
STRING	Cagra.0448s0013.1.p	1e-147	(Capsella grandiflora)
STRING	Bo3g132770.1	1e-147	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM4055	27	58

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G46640.2	1e-92	G2-like family protein

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]