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

Neem_1793_f_14

Organism

Azadirachta indica

Taxonomic ID

124943

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_14	genome	NGD	View Nucleic Acid

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	G2-like	95.6	3.9e-30	170	223	1	55
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

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF46689	1.18E-19	167	227	IPR009057	Homeodomain-like
PROSITE profile	PS51294	10.061	167	226	IPR017930	Myb domain
Gene3D	G3DSA:1.10.10.60	2.6E-30	169	228	IPR009057	Homeodomain-like
TIGRFAMs	TIGR01557	1.2E-23	171	223	IPR006447	Myb domain, plants
Pfam	PF00249	4.4E-8	173	222	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: 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

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5lxu_A	5e-35	170	226	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

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_006424880.1	1e-124	transcription factor LUX
Refseq	XP_006488371.1	1e-124	transcription factor LUX
Swissprot	Q9SNB4	2e-81	PCL1_ARATH; Transcription factor LUX
TrEMBL	A0A067FZK3	1e-126	A0A067FZK3_CITSI; Uncharacterized protein
STRING	XP_006488371.1	1e-124	(Citrus sinensis)
STRING	XP_006424879.1	1e-124	(Citrus clementina)

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	4e-75	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]