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

Csa06g020430.1

Organism

Camelina sativa

Taxonomic ID

90675

Taxonomic Lineage

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

Family

G2-like

Protein Properties

Length: 343aa MW: 36466.8 Da PI: 5.6566

Description

G2-like family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Csa06g020430.1	genome	CSGP	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	G2-like	95.1	5.5e-30	148	201	1	55
G2-like 1 kprlrWtpeLHerFveaveqLGGsekAtPktilelmkvkgLtlehvkSHLQkYRl 55 +prl+Wtp+LH+rFv++v++L G+++A+Pkti++lm+v+gLt+e+v+SHLQkYRl Csa06g020430.1 148 RPRLVWTPQLHKRFVDVVAHL-GIKNAVPKTIMQLMNVEGLTRENVASHLQKYRL 201 59*****************.******************************8 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS51294	10.252	143	204	IPR017930	Myb domain
SuperFamily	SSF46689	1.79E-19	145	205	IPR009057	Homeodomain-like
Gene3D	G3DSA:1.10.10.60	3.8E-30	147	206	IPR009057	Homeodomain-like
TIGRFAMs	TIGR01557	1.7E-23	149	201	IPR006447	Myb domain, plants
Pfam	PF00249	6.1E-8	151	200	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: 343 aa Download sequence Send to blast
MGEEVRMSDY DVSGDGDRVL EWEMGLPSDD DLASLSYSLI PANLAMAFSI TPERSRTVQD 60 VNRASETTLS SLRSGSSGPN TSSSNNNSNA VEEEEDRVGS SSPGSDSKKQ KTSDGDGDGG 120 GGLDPDTEMA AEEGDSGTED LSGKTLKRPR LVWTPQLHKR FVDVVAHLGI KNAVPKTIMQ 180 LMNVEGLTRE NVASHLQKYR LYLKRMQGLT NEGPSASDKL FSSTPVPPQS FQDIGGSNGN 240 GNGNGNGQGN GSAGQVRVPI PVPYGGQPMM QMPVYAHHMG MQGYHHQNQG HDPYHQNHHH 300 HHHGAGGGGS GAFESNPYMM QQNKFGSMAS YPSVGGGSAN EN*

Sequence ? help Back to Top

Protein Sequence Length: 343 aa Download sequence Send to blast

MGEEVRMSDY DVSGDGDRVL EWEMGLPSDD DLASLSYSLI PANLAMAFSI TPERSRTVQD  60
VNRASETTLS SLRSGSSGPN TSSSNNNSNA VEEEEDRVGS SSPGSDSKKQ KTSDGDGDGG  120
GGLDPDTEMA AEEGDSGTED LSGKTLKRPR LVWTPQLHKR FVDVVAHLGI KNAVPKTIMQ  180
LMNVEGLTRE NVASHLQKYR LYLKRMQGLT NEGPSASDKL FSSTPVPPQS FQDIGGSNGN  240
GNGNGNGQGN GSAGQVRVPI PVPYGGQPMM QMPVYAHHMG MQGYHHQNQG HDPYHQNHHH  300
HHHGAGGGGS GAFESNPYMM QQNKFGSMAS YPSVGGGSAN EN*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5lxu_A	1e-35	148	204	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	Csa06g020430.1

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	0.0	AB206576.1 Arabidopsis thaliana PCL1 gene for PHYTOCLOCK 1, complete cds.
GenBank	AK227686	0.0	AK227686.1 Arabidopsis thaliana mRNA for hypothetical protein, complete cds, clone: RAFL14-26-J19.
GenBank	AL133314	0.0	AL133314.1 Arabidopsis thaliana DNA chromosome 3, BAC clone F12A12.
GenBank	BT006425	0.0	BT006425.1 Arabidopsis thaliana At3g46640 gene, complete cds.
GenBank	CP002686	0.0	CP002686.1 Arabidopsis thaliana chromosome 3, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_010514989.1	0.0	PREDICTED: transcription factor LUX
Refseq	XP_010514990.1	0.0	PREDICTED: transcription factor LUX
Swissprot	Q9SNB4	0.0	PCL1_ARATH; Transcription factor LUX
TrEMBL	R0HGQ9	0.0	R0HGQ9_9BRAS; Uncharacterized protein
STRING	XP_010514989.1	0.0	(Camelina sativa)

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-144	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]