PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Malpighiales; Salicaceae; Saliceae; Populus

Family

FAR1

Protein Properties

Length: 648aa MW: 75099.9 Da PI: 7.5943

Description

FAR1 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
CCG009166.2	genome	LZU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	FAR1	85.6	7.4e-27	86	187	1	90
FAR1 1 kfYneYAkevGFsvrkskskkskrngeitkrtfvCskegkreeekkk............tekerrtraetrtgCkaklkvkkekdgkwevtkleleHn 86 +fY+eYA+++GF++ +++s++sk+++e+++++f Cs++g+++e +k+ e+ ++r+ ++t+Cka+++vk++ dgkw+++++++eHn CCG009166.2 86 SFYQEYARSMGFNTAIQNSRRSKTSREFIDAKFACSRYGTKREYDKSfnrprsrqtkqdPENGTSRRSCSKTDCKASMHVKRRPDGKWVIHSFVKEHN 183 5*****************************************9999999998877766666679999*************************** PP FAR1 87 Hela 90 H l CCG009166.2 184 HGLL 187 *997 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF03101	9.7E-25	86	188	IPR004330	FAR1 DNA binding domain
Pfam	PF10551	2.8E-29	286	377	IPR018289	MULE transposase domain
PROSITE profile	PS50966	9.273	566	602	IPR007527	Zinc finger, SWIM-type
SMART	SM00575	1.7E-7	577	604	IPR006564	Zinc finger, PMZ-type
Pfam	PF04434	1.3E-4	578	601	IPR007527	Zinc finger, SWIM-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: 648 aa Download sequence Send to blast
MDIDLRLPSG DHDKEGEEPN GVDNMLSEVK LHNGDAETGN VVDVAEEILS IEGGDVNSPT 60 PTTFKEDTNL EPLSGMEFES HGAAYSFYQE YARSMGFNTA IQNSRRSKTS REFIDAKFAC 120 SRYGTKREYD KSFNRPRSRQ TKQDPENGTS RRSCSKTDCK ASMHVKRRPD GKWVIHSFVK 180 EHNHGLLPAQ AVSEQTRRMY AAMAQQFAEY KNVAGLKNDP KNSFDKGRNL GLEAGDTKIL 240 LDFFTKMQNM NSNFFYAVDL GEDQCLKNLF WTDAKSRHDY GNFSDVVSFD TTYVRNKYKM 300 PLALFVGVNQ HYQFMLLGCA LISDESAATY SWLMQTWLRA MGGQTPKVII TDQDKAMKLV 360 ISEVFPSAQH CFFLWNILGK VSENLGSVIK QNENFMAKFD KCIFRSWTEN EFGKRWWKIL 420 DRFELRENEW MQSLYEDREQ WVPIYMRGAF LAGMSTVLRS ESTNSHFDKH VHKKTTVQEF 480 VRQYEPILQD RYEEEAKADS DTWNKQPSLK SPSPLEKSVS GVYTHAVFKK FQVEVLGVVA 540 CHPKMESQDE ISVSFRVQDL EKHQDFTVLW NQMRLEVSCI CRLYEYKGFL CRHALVVLQM 600 CQQSAIPSQY ILKRWTKEAK SKHLLGEESE KVQSRVQRRS FWKLHQHE

Sequence ? help Back to Top

Protein Sequence Length: 648 aa Download sequence Send to blast

MDIDLRLPSG DHDKEGEEPN GVDNMLSEVK LHNGDAETGN VVDVAEEILS IEGGDVNSPT  60
PTTFKEDTNL EPLSGMEFES HGAAYSFYQE YARSMGFNTA IQNSRRSKTS REFIDAKFAC  120
SRYGTKREYD KSFNRPRSRQ TKQDPENGTS RRSCSKTDCK ASMHVKRRPD GKWVIHSFVK  180
EHNHGLLPAQ AVSEQTRRMY AAMAQQFAEY KNVAGLKNDP KNSFDKGRNL GLEAGDTKIL  240
LDFFTKMQNM NSNFFYAVDL GEDQCLKNLF WTDAKSRHDY GNFSDVVSFD TTYVRNKYKM  300
PLALFVGVNQ HYQFMLLGCA LISDESAATY SWLMQTWLRA MGGQTPKVII TDQDKAMKLV  360
ISEVFPSAQH CFFLWNILGK VSENLGSVIK QNENFMAKFD KCIFRSWTEN EFGKRWWKIL  420
DRFELRENEW MQSLYEDREQ WVPIYMRGAF LAGMSTVLRS ESTNSHFDKH VHKKTTVQEF  480
VRQYEPILQD RYEEEAKADS DTWNKQPSLK SPSPLEKSVS GVYTHAVFKK FQVEVLGVVA  540
CHPKMESQDE ISVSFRVQDL EKHQDFTVLW NQMRLEVSCI CRLYEYKGFL CRHALVVLQM  600
CQQSAIPSQY ILKRWTKEAK SKHLLGEESE KVQSRVQRRS FWKLHQHE

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}.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_011001055.1	0.0	PREDICTED: protein FAR-RED ELONGATED HYPOCOTYL 3-like isoform X2
Refseq	XP_011001056.1	0.0	PREDICTED: protein FAR-RED ELONGATED HYPOCOTYL 3-like isoform X2
Refseq	XP_011001057.1	0.0	PREDICTED: protein FAR-RED ELONGATED HYPOCOTYL 3-like isoform X2
Swissprot	Q9LIE5	0.0	FHY3_ARATH; Protein FAR-RED ELONGATED HYPOCOTYL 3
TrEMBL	A0A2K1X9A7	0.0	A0A2K1X9A7_POPTR; Uncharacterized protein
TrEMBL	A0A385JIP4	0.0	A0A385JIP4_POPTO; Far-red elongated hypocotyls 3
STRING	POPTR_0016s01980.1	0.0	(Populus trichocarpa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF40	30	530

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]