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

Dca54358.1

Organism

Dianthus caryophyllus

Taxonomic ID

3570

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; Caryophyllales; Caryophyllaceae; Caryophylleae; Dianthus

Family

FAR1

Protein Properties

Length: 845aa MW: 96708.5 Da PI: 7.3088

Description

FAR1 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Dca54358.1	genome	DCA	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	FAR1	81.4	1.5e-25	87	188	2	91
FAR1 2 fYneYAkevGFsvrkskskkskrngeitkrtfvCskegkreeekkk............tekerrtraetrtgCkaklkvkkekdgkwevtkleleHnHe 88 fY++YA+++GF++ +++s++sk+++e+++++f Csk+g+++e +k +++ +r+ +t+Cka+++vk++ dg+w+++++ +eHnH+ Dca54358.1 87 FYQDYARSMGFNTAIQNSRRSKTSREFIDAKFACSKYGTKREYDKGnrprvrqisnqePDSATGRRSCGKTNCKASMHVKRRMDGRWVIHSFIKEHNHD 185 9************************************999999889999988775545555589999**************************** PP FAR1 89 lap 91 l p Dca54358.1 186 LLP 188 975 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF03101	3.0E-23	87	188	IPR004330	FAR1 DNA binding domain
Pfam	PF10551	8.6E-28	286	378	IPR018289	MULE transposase domain
PROSITE profile	PS50966	9.248	567	603	IPR007527	Zinc finger, SWIM-type
Pfam	PF04434	2.4E-4	577	602	IPR007527	Zinc finger, SWIM-type
SMART	SM00575	5.9E-9	578	605	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: 845 aa Download sequence Send to blast
MDIDLRLPSG EQDKHDEETH VLSNMLGSDD NLHDEEARTA LEAVVLHGNE EVTLACATTD 60 LVDFKDDVNL EPLPGMEFVS HQEAYAFYQD YARSMGFNTA IQNSRRSKTS REFIDAKFAC 120 SKYGTKREYD KGNRPRVRQI SNQEPDSATG RRSCGKTNCK ASMHVKRRMD GRWVIHSFIK 180 EHNHDLLPAQ AVSEQTRKIY AAMARHYAEY KSVIGLKNEL KSPFEKTRNL VLDPGDAKLA 240 LNFCKQMQVI NSHFFYAVEV SDDLRLKTLL WVDAKSRHDY VNFTDVISVD TTYIRNKYKI 300 PLALLVGVNQ HYQFMLLGCA IVTDESPTTY SWILQTWLQA MGGQAPKVII TDQENSFKSA 360 VSEVFPHARH CYHLWHVLGK VSENLGQVIK THDNFMTKFE KCIYRSWTDD EFEKRWQKLV 420 ARFGLDKDSD WIHSLYEDRR LWVPLYMKDT LLAGLSTVPR SESVNSYFDR YVHKRTTISE 480 FLKQYESIIQ DRYEEEARAD ADTWNKQPML KSPSPLEKHM STIYTQAVFK KFQVEILGAV 540 ACHPKRERQD DQMTTFKVRD LEKDPDFMVT WNEMKSEVSC ICRLFEYKGF LCRHAMIVLQ 600 MCGLSMIPSL YILRRWTKEA KERHLTGESS MQVSSRVQRY NDLCNRAVKL SEEGSLSQES 660 YSIAFLALDE AFSSCIAANT ACKTLSEVGT SLTHELLSIE NGSPSQSLGK TSKKKSLTKK 720 RKVNSEGEPI TAAPQDTLQP LDKLSSRPVT SLEGLYGTQQ NVQGMVQLNL MGPMSENYYG 780 SQPAIQGLGQ LNSIASGHDG YYSQQGMHGL GQMDFFRAPT NFGYGIRDEP IVRSTQLHDD 840 RHKHS

Sequence ? help Back to Top

Protein Sequence Length: 845 aa Download sequence Send to blast

MDIDLRLPSG EQDKHDEETH VLSNMLGSDD NLHDEEARTA LEAVVLHGNE EVTLACATTD  60
LVDFKDDVNL EPLPGMEFVS HQEAYAFYQD YARSMGFNTA IQNSRRSKTS REFIDAKFAC  120
SKYGTKREYD KGNRPRVRQI SNQEPDSATG RRSCGKTNCK ASMHVKRRMD GRWVIHSFIK  180
EHNHDLLPAQ AVSEQTRKIY AAMARHYAEY KSVIGLKNEL KSPFEKTRNL VLDPGDAKLA  240
LNFCKQMQVI NSHFFYAVEV SDDLRLKTLL WVDAKSRHDY VNFTDVISVD TTYIRNKYKI  300
PLALLVGVNQ HYQFMLLGCA IVTDESPTTY SWILQTWLQA MGGQAPKVII TDQENSFKSA  360
VSEVFPHARH CYHLWHVLGK VSENLGQVIK THDNFMTKFE KCIYRSWTDD EFEKRWQKLV  420
ARFGLDKDSD WIHSLYEDRR LWVPLYMKDT LLAGLSTVPR SESVNSYFDR YVHKRTTISE  480
FLKQYESIIQ DRYEEEARAD ADTWNKQPML KSPSPLEKHM STIYTQAVFK KFQVEILGAV  540
ACHPKRERQD DQMTTFKVRD LEKDPDFMVT WNEMKSEVSC ICRLFEYKGF LCRHAMIVLQ  600
MCGLSMIPSL YILRRWTKEA KERHLTGESS MQVSSRVQRY NDLCNRAVKL SEEGSLSQES  660
YSIAFLALDE AFSSCIAANT ACKTLSEVGT SLTHELLSIE NGSPSQSLGK TSKKKSLTKK  720
RKVNSEGEPI TAAPQDTLQP LDKLSSRPVT SLEGLYGTQQ NVQGMVQLNL MGPMSENYYG  780
SQPAIQGLGQ LNSIASGHDG YYSQQGMHGL GQMDFFRAPT NFGYGIRDEP IVRSTQLHDD  840
RHKHS

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_010680157.1	0.0	PREDICTED: protein FAR-RED ELONGATED HYPOCOTYL 3 isoform X2
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]