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

Solyc02g068550.1.1

Organism

Solanum lycopersicum

Taxonomic ID

4081

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Solanoideae; Solaneae; Solanum; Lycopersicon

Family

FAR1

Protein Properties

Length: 795aa MW: 90467.6 Da PI: 8.1867

Description

FAR1 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Solyc02g068550.1.1	genome	ITAG	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	FAR1	82.5	7.2e-26	96	202	2	91
FAR1 2 fYneYAkevGFsvrkskskkskrngeitkrtfvCskegkreeekkk.................tekerrtraetrtgCkaklkvkkekdgk 75 Y+eYAk++GFs +++s++s+ +g++++++fvCs++g+++e +++ ++k r +r+ ++t+Cka+l+vk+++dg+ Solyc02g068550.1.1 96 HYKEYAKSIGFSSIIKASRRSRISGKFIDAKFVCSRYGSKREPSTSgaepvpstdaagsnpvkRKKGRINRSWSKTDCKACLHVKRRSDGR 186 6**************************************999999*********998889999****************** PP FAR1 76 wevtkleleHnHelap 91 w+++++++eHnHe++p Solyc02g068550.1.1 187 WVIHTFVKEHNHEIFP 202 ***********975 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF03101	1.1E-23	96	202	IPR004330	FAR1 DNA binding domain
Pfam	PF10551	4.4E-27	319	412	IPR018289	MULE transposase domain
PROSITE profile	PS50966	10.361	599	635	IPR007527	Zinc finger, SWIM-type
Pfam	PF04434	4.7E-8	600	634	IPR007527	Zinc finger, SWIM-type
SMART	SM00575	1.8E-6	610	637	IPR006564	Zinc finger, PMZ-type

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0009585	Biological Process	red, far-red light phototransduction
GO:0010018	Biological Process	far-red light signaling pathway
GO:0042753	Biological Process	positive regulation of circadian rhythm
GO:0045893	Biological Process	positive regulation of transcription, DNA-templated
GO:0005634	Cellular Component	nucleus
GO:0003700	Molecular Function	transcription factor activity, sequence-specific DNA binding
GO:0008270	Molecular Function	zinc ion binding

Sequence ? help Back to Top
Protein Sequence Length: 795 aa Download sequence Send to blast
MVMDLVPPSG DHHEKEDCGR HTCVRIESAN GELRGTVTAS KSVCLGIENA GTSWNERTSN 60 GANVLPNTDS LAVNCYRNLE PHDGMEFDSK ENAFSHYKEY AKSIGFSSII KASRRSRISG 120 KFIDAKFVCS RYGSKREPST SGAEPVPSTD AAGSNPVKRK KGRINRSWSK TDCKACLHVK 180 RRSDGRWVIH TFVKEHNHEI FPDWTSYPPG HRNIDLGKND ADAFHAIRGR TKKTYASTSR 240 HSGFVKKVEK QKNGGTNSSP QSLALDEGDA QVILEYFLCM QDENPNFFYA LDLNQEKRLR 300 NVFWIDAKCR LDCGNFSDVV LFDTTYITDE YKLQFVPFIG VNHHFQSILL GCGLIADESK 360 STFIWLMRAW LRALGGQVPK VILTDQGKIL EEVIAEVLPD SRHCFCLWHV LSKIQEKLGH 420 VIRQHESFLS KFNKCILRSA TNELFEKRWW KVVARFDLGN DLWIKSLYED RLRWVPTYMN 480 KIFLAGMSTM QRAESISALL DKCILCKTTL KEFLDQYKKL LQEKCQGEAN ADFETRHKQP 540 GLKSPSPFEK QMSTLYTHTI FKKFQVEVLG VVACHPKKEN DDGENGTYRV QDFEVNQEFI 600 VVWNERTSDT SCSCHLFEYN GFLCRHVMIV LQMAGVHNIP SKYVLRRWTK GAKSREKTRQ 660 VALVDSRVQR YNDLCQRAFE LGDEGSLSQE SYNILSSVLE NFLRTCETVN DANLNESEPC 720 SLPNQGLKDL EVFTDRNNPS KSNGKNIARK EKEGQIDFGE STVDYPFGSH SAIQPMATYI 780 PEFHFLMATT AAPK*

Sequence ? help Back to Top

Protein Sequence Length: 795 aa Download sequence Send to blast

MVMDLVPPSG DHHEKEDCGR HTCVRIESAN GELRGTVTAS KSVCLGIENA GTSWNERTSN  60
GANVLPNTDS LAVNCYRNLE PHDGMEFDSK ENAFSHYKEY AKSIGFSSII KASRRSRISG  120
KFIDAKFVCS RYGSKREPST SGAEPVPSTD AAGSNPVKRK KGRINRSWSK TDCKACLHVK  180
RRSDGRWVIH TFVKEHNHEI FPDWTSYPPG HRNIDLGKND ADAFHAIRGR TKKTYASTSR  240
HSGFVKKVEK QKNGGTNSSP QSLALDEGDA QVILEYFLCM QDENPNFFYA LDLNQEKRLR  300
NVFWIDAKCR LDCGNFSDVV LFDTTYITDE YKLQFVPFIG VNHHFQSILL GCGLIADESK  360
STFIWLMRAW LRALGGQVPK VILTDQGKIL EEVIAEVLPD SRHCFCLWHV LSKIQEKLGH  420
VIRQHESFLS KFNKCILRSA TNELFEKRWW KVVARFDLGN DLWIKSLYED RLRWVPTYMN  480
KIFLAGMSTM QRAESISALL DKCILCKTTL KEFLDQYKKL LQEKCQGEAN ADFETRHKQP  540
GLKSPSPFEK QMSTLYTHTI FKKFQVEVLG VVACHPKKEN DDGENGTYRV QDFEVNQEFI  600
VVWNERTSDT SCSCHLFEYN GFLCRHVMIV LQMAGVHNIP SKYVLRRWTK GAKSREKTRQ  660
VALVDSRVQR YNDLCQRAFE LGDEGSLSQE SYNILSSVLE NFLRTCETVN DANLNESEPC  720
SLPNQGLKDL EVFTDRNNPS KSNGKNIARK EKEGQIDFGE STVDYPFGSH SAIQPMATYI  780
PEFHFLMATT AAPK*

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription activator that recognizes and binds to the DNA consensus sequence 5'-CACGCGC-3'. Activates the expression of FHY1 and FHL involved in light responses. Positive regulator of chlorophyll biosynthesis via the activation of HEMB1 gene expression. {ECO:0000269\|PubMed:11889039, ECO:0000269\|PubMed:12753585, ECO:0000269\|PubMed:18033885, ECO:0000269\|PubMed:22634759}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Solyc02g068550.1.1

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Down-regulated after exposure to far-red light. Subject to a negative feedback regulation by PHYA signaling. {ECO:0000269\|PubMed:18033885}.

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	AC215455	0.0	Solanum lycopersicum chromosome 2 clone C02SLe0042O06, complete sequence

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_010317042.1	0.0	protein FAR-RED IMPAIRED RESPONSE 1
Refseq	XP_010317043.1	0.0	protein FAR-RED IMPAIRED RESPONSE 1
Refseq	XP_025885074.1	0.0	protein FAR-RED IMPAIRED RESPONSE 1
Swissprot	Q9SWG3	0.0	FAR1_ARATH; Protein FAR-RED IMPAIRED RESPONSE 1
TrEMBL	A0A3Q7F0W4	0.0	A0A3Q7F0W4_SOLLC; Uncharacterized protein
STRING	Solyc02g068550.1.1	0.0	(Solanum lycopersicum)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Asterids	OGEA496	21	103
Representative plant	OGRP30	12	351

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT4G15090.1	0.0	FAR1 family protein

Link Out ? help Back to Top
Phytozome	Solyc02g068550.1.1

Publications ? help Back to Top
Wang Y,van der Hoeven RS,Nielsen R,Mueller LA,Tanksley SD Characteristics of the tomato nuclear genome as determined by sequencing undermethylated EcoRI digested fragments. Theor. Appl. Genet., 2005. 112(1): p. 72-84 [PMID:16208505] Domergue F, et al. Three Arabidopsis fatty acyl-coenzyme A reductases, FAR1, FAR4, and FAR5, generate primary fatty alcohols associated with suberin deposition. Plant Physiol., 2010. 153(4): p. 1539-54 [PMID:20571114] Heyndrickx KS,Vandepoele K Systematic identification of functional plant modules through the integration of complementary data sources. Plant Physiol., 2012. 159(3): p. 884-901 [PMID:22589469] Wang C, et al. SCAB3 Is Required for Reorganization of Actin Filaments during Light Quality Changes. J Genet Genomics, 2015. 42(4): p. 161-8 [PMID:25953354] Wang W, et al. A pair of light signaling factors FHY3 and FAR1 regulates plant immunity by modulating chlorophyll biosynthesis. J Integr Plant Biol, 2016. 58(1): p. 91-103 [PMID:25989254] Ma L, et al. Arabidopsis FHY3 and FAR1 Regulate Light-Induced myo-Inositol Biosynthesis and Oxidative Stress Responses by Transcriptional Activation of MIPS1. Mol Plant, 2016. 9(4): p. 541-57 [PMID:26714049] Siddiqui H,Khan S,Rhodes BM,Devlin PF FHY3 and FAR1 Act Downstream of Light Stable Phytochromes. Front Plant Sci, 2016. 7: p. 175 [PMID:26941752] Liu L,Li B,Liu X FAR-RED ELONGATED HYPOCOTYL3 promotes floral meristem determinacy in Arabidopsis. Plant Signal Behav, 2016. 11(10): p. e1238545 [PMID:27660915] Ma L,Xue N,Fu X,Zhang H,Li G Arabidopsis thaliana FAR-RED ELONGATED HYPOCOTYLS3 (FHY3) and FAR-RED-IMPAIRED RESPONSE1 (FAR1) modulate starch synthesis in response to light and sugar. New Phytol., 2017. 213(4): p. 1682-1696 [PMID:27859295] Liu Y, et al. Light and Ethylene Coordinately Regulate the Phosphate Starvation Response through Transcriptional Regulation of PHOSPHATE STARVATION RESPONSE1. Plant Cell, 2017. 29(9): p. 2269-2284 [PMID:28842534] Joly-Lopez Z, et al. Abiotic Stress Phenotypes Are Associated with Conserved Genes Derived from Transposable Elements. Front Plant Sci, 2017. 8: p. 2027 [PMID:29250089]