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

Itr_sc001317.1_g00002.1

Organism

Ipomoea trifida

Taxonomic ID

35884

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Convolvulaceae; Ipomoeeae; Ipomoea

Family

G2-like

Protein Properties

Length: 326aa MW: 35863.8 Da PI: 6.07

Description

G2-like family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Itr_sc001317.1_g00002.1	genome	Kazusa	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	G2-like	92	5.1e-29	156	209	1	55
G2-like 1 kprlrWtpeLHerFveaveqLGGsekAtPktilelmkvkgLtlehvkSHLQkYRl 55 +prl+Wtp+LH+rF+++v +L G+ kA+Pkti++lm+v+gLt+e+v+SHLQkYRl Itr_sc001317.1_g00002.1 156 RPRLVWTPQLHKRFLDVVGHL-GISKAVPKTIMQLMNVEGLTRENVASHLQKYRL 209 59*****************.******************************8 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS51294	9.24	153	212	IPR017930	Myb domain
SuperFamily	SSF46689	2.87E-19	154	213	IPR009057	Homeodomain-like
Gene3D	G3DSA:1.10.10.60	3.4E-29	155	214	IPR009057	Homeodomain-like
TIGRFAMs	TIGR01557	1.1E-23	157	209	IPR006447	Myb domain, plants
Pfam	PF00249	1.6E-6	159	208	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: 326 aa Download sequence Send to blast
MGEEVQVGDY DGVSAAGGDE DRMMEWEDGL PNADDLTPLC QSLIPPELAS AFRISPAPFR 60 TMLDVSRASK VTFSSLQGGQ PPTMSSTNDF NFKAFDEDGN REQMVTDDDT DLTREGSDSR 120 KSRRIESGGG AEEADSALRN ENFGEDSCAK TLNLKRPRLV WTPQLHKRFL DVVGHLGISK 180 AVPKTIMQLM NVEGLTRENV ASHLQKYRLY LKRMQGLPNE GPSPSDHLFA STPVPQSLNE 240 SSESGHGNSH HNSNGHMAMP IPFPYPHQHQ MVPMPMFGHN GHIGVPAGNP NGAPSNGFHH 300 QYYMGQQSQW PGNKFGAYHH VATTDK

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5lxu_A	1e-32	156	212	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}.

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}.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_019159788.1	0.0	PREDICTED: transcription factor PCL1-like isoform X1
Swissprot	Q9SNB4	7e-81	PCL1_ARATH; Transcription factor LUX
TrEMBL	A0A3Q7H491	1e-132	A0A3Q7H491_SOLLC; Uncharacterized protein
STRING	Solyc06g076350.2.1	1e-132	(Solanum lycopersicum)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Asterids	OGEA3580	23	43

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G46640.3	6e-83	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]