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

Sp_157270_hzna.t1

Common Name

SOVF_157270

Organism

Spinacia oleracea

Taxonomic ID

3562

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; Caryophyllales; Chenopodiaceae; Chenopodioideae; Anserineae; Spinacia

Family

FAR1

Protein Properties

Length: 848aa MW: 97101.7 Da PI: 6.9851

Description

FAR1 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Sp_157270_hzna.t1	genome	TBVR	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	FAR1	82.4	7.5e-26	88	189	2	91
FAR1 2 fYneYAkevGFsvrkskskkskrngeitkrtfvCskegkreeekkk............tekerrtraetrtgCkaklkvkkekdgkwevtkl 81 fY+eYA+++GF++ +++s++sk+++e+++++f Cs++g+++e +k e++ +r+ +t+Cka+++vk++ dg+w+++++ Sp_157270_hzna.t1 88 FYQEYARSMGFNTAIQNSRRSKTSREFIDAKFACSRYGTKREYDKGnrprirqcnkqePESATGRRSCGKTNCKASMHVKRRPDGRWVIHSF 179 9************************************999998889999999775555555589999******************* PP FAR1 82 eleHnHelap 91 +eHnHel p Sp_157270_hzna.t1 180 IKEHNHELLP 189 *****975 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF03101	1.3E-23	88	189	IPR004330	FAR1 DNA binding domain
Pfam	PF10551	9.6E-29	287	379	IPR018289	MULE transposase domain
PROSITE profile	PS50966	8.951	568	604	IPR007527	Zinc finger, SWIM-type
SMART	SM00575	7.9E-6	579	606	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:0010218	Biological Process	response to far red light
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: 848 aa Download sequence Send to blast
MDIDLRLPSG EEDLQDEDQT TDSNMLDRYA KLDSSGDAET TLTVAEVHAE EELALGSTTS 60 DLAEYKEDVN LEPLHGMEFV SHQEAYAFYQ EYARSMGFNT AIQNSRRSKT SREFIDAKFA 120 CSRYGTKREY DKGNRPRIRQ CNKQEPESAT GRRSCGKTNC KASMHVKRRP DGRWVIHSFI 180 KEHNHELLPA QAVSEQTRKM YAAMARNYAE YKNVVGLKND SKIPFDKNRN LLLDAGDAKL 240 LLEFFTQMQT VNSNFFYAVD LSDDLRLKSL LWIDAKSRHD YVNFNDVVSF DTAYIRNKYK 300 MPLALLVGVN QHYQFMLLGC AIVSDESTAT YSWILQTWLK AMGGQAPKVI ITDQDDAIKS 360 AVSEVFPITR HCFHLWHILG KVSENLGHII KKHENFMAKF DKCIYRSWGD EEFEKRWQKL 420 VVRFELNKDD EWIQSLYEER KLWVPAFMKD CFFAGMSAIQ RSDSVNSYFD KYVHKKTAVP 480 DFLKQYDTIT QDRYEEEARA DSDTWNKQPA LKSPSPFEKH MSTLYTHAMF RKFQVEVLGA 540 VACHPKRERQ EDLITTFKVQ DFEKNQDFLV TWNEMKSEVS CICHLFEYKG FLCRHTMIVL 600 QICGLSMIPS QYILKRWTKD AKERHLIGDG TEQVLSRVQR YNDLCNRAIK LGEEGSLSQE 660 SYNLALRALD EAFTNCIGVN NSCKTLVEVG TSATHGLLSI EDGSPSRSFS KTAKKKNPTK 720 KRKMNTETEA MAIGSQDGLQ QMDKLGSRPV TTLDGFYGTQ QGVQGMVQLN LMAPTRDNYY 780 GNPPAIQGLG QLNSIAPSHE GYFGQQTMHG LGQMDFFRGP TGFSYGIREE ANVNVRPAQL 840 HEDGARHS

Sequence ? help Back to Top

Protein Sequence Length: 848 aa Download sequence Send to blast

MDIDLRLPSG EEDLQDEDQT TDSNMLDRYA KLDSSGDAET TLTVAEVHAE EELALGSTTS  60
DLAEYKEDVN LEPLHGMEFV SHQEAYAFYQ EYARSMGFNT AIQNSRRSKT SREFIDAKFA  120
CSRYGTKREY DKGNRPRIRQ CNKQEPESAT GRRSCGKTNC KASMHVKRRP DGRWVIHSFI  180
KEHNHELLPA QAVSEQTRKM YAAMARNYAE YKNVVGLKND SKIPFDKNRN LLLDAGDAKL  240
LLEFFTQMQT VNSNFFYAVD LSDDLRLKSL LWIDAKSRHD YVNFNDVVSF DTAYIRNKYK  300
MPLALLVGVN QHYQFMLLGC AIVSDESTAT YSWILQTWLK AMGGQAPKVI ITDQDDAIKS  360
AVSEVFPITR HCFHLWHILG KVSENLGHII KKHENFMAKF DKCIYRSWGD EEFEKRWQKL  420
VVRFELNKDD EWIQSLYEER KLWVPAFMKD CFFAGMSAIQ RSDSVNSYFD KYVHKKTAVP  480
DFLKQYDTIT QDRYEEEARA DSDTWNKQPA LKSPSPFEKH MSTLYTHAMF RKFQVEVLGA  540
VACHPKRERQ EDLITTFKVQ DFEKNQDFLV TWNEMKSEVS CICHLFEYKG FLCRHTMIVL  600
QICGLSMIPS QYILKRWTKD AKERHLIGDG TEQVLSRVQR YNDLCNRAIK LGEEGSLSQE  660
SYNLALRALD EAFTNCIGVN NSCKTLVEVG TSATHGLLSI EDGSPSRSFS KTAKKKNPTK  720
KRKMNTETEA MAIGSQDGLQ QMDKLGSRPV TTLDGFYGTQ QGVQGMVQLN LMAPTRDNYY  780
GNPPAIQGLG QLNSIAPSHE GYFGQQTMHG LGQMDFFRGP TGFSYGIREE ANVNVRPAQL  840
HEDGARHS

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. When associated with PHYA, protects it from being recognized and degraded by the COP1/SPA complex. Positive regulator of chlorophyll biosynthesis via the activation of HEMB1 gene expression. {ECO:0000269\|PubMed:11889039, ECO:0000269\|PubMed:12753585, ECO:0000269\|PubMed:17012604, ECO:0000269\|PubMed:18033885, ECO:0000269\|PubMed:18715961, ECO:0000269\|PubMed:22634759}.

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00078	ChIP-seq	Transfer from AT3G22170	Download

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. Up-regulated by white light. {ECO:0000269\|PubMed:11889039, ECO:0000269\|PubMed:18033885, ECO:0000269\|PubMed:22634759}.

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	Retrieve

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_021843597.1	0.0	protein FAR-RED ELONGATED HYPOCOTYL 3
Refseq	XP_021843598.1	0.0	protein FAR-RED ELONGATED HYPOCOTYL 3
Refseq	XP_021843599.1	0.0	protein FAR-RED ELONGATED HYPOCOTYL 3
Swissprot	Q9LIE5	0.0	FHY3_ARATH; Protein FAR-RED ELONGATED HYPOCOTYL 3
TrEMBL	A0A0K9QP72	0.0	A0A0K9QP72_SPIOL; Uncharacterized protein
STRING	XP_010680156.1	0.0	(Beta vulgaris)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G22170.2	0.0	far-red elongated hypocotyls 3

Publications ? help Back to Top
Chang N,Gao Y,Zhao L,Liu X,Gao H Arabidopsis FHY3/CPD45 regulates far-red light signaling and chloroplast division in parallel. Sci Rep, 2015. 5: p. 9612 [PMID:25872642] 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] Li D, et al. FAR-RED ELONGATED HYPOCOTYL3 activates SEPALLATA2 but inhibits CLAVATA3 to regulate meristem determinacy and maintenance in Arabidopsis. Proc. Natl. Acad. Sci. U.S.A., 2016. 113(33): p. 9375-80 [PMID:27469166] 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]