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

Achn176661

Organism

Actinidia chinensis

Taxonomic ID

3625

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; Ericales; Actinidiaceae; Actinidia

Family

FAR1

Protein Properties

Length: 821aa MW: 94598.6 Da PI: 6.9604

Description

FAR1 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Achn176661	genome	IKGC	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	FAR1	83.4	3.7e-26	89	192	1	91
FAR1 1 kfYneYAkevGFsvrkskskkskrngeitkrtfvCskegkreeekkk.............tekerrtraetrtgCkaklkvkkekdgkwevtkleleHn 86 +fY+eYA+++GF++ +++s++sk+++e+++++f Cs++g+++e +k+ t+++ +r+ +t+Cka+++vk++ dgkw ++++e+eHn Achn176661 89 SFYQEYARSMGFNTAIQNSRRSKTSREFIDAKFACSRYGTKREYEKSlnqqrkrqgnkqeTDNSTGRRSCAKTDCKACMHVKRRPDGKWIIHRFEKEHN 187 5****************************************999988888887766554555559999************************* PP FAR1 87 Helap 91 Hel p Achn176661 188 HELLP 192 975 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF03101	1.4E-23	89	192	IPR004330	FAR1 DNA binding domain
Pfam	PF10551	4.3E-30	290	382	IPR018289	MULE transposase domain
PROSITE profile	PS50966	9.087	570	606	IPR007527	Zinc finger, SWIM-type
Pfam	PF04434	1.6E-4	577	604	IPR007527	Zinc finger, SWIM-type
SMART	SM00575	5.8E-8	581	608	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: 821 aa Download sequence Send to blast
MDIDLRLPSG EHEKEDEEPS GIDNMLDGED KLQNGDEGNG NLVDVGDELN LADGRNMNSS 60 AVDMVVFKED TNLEPLAGME FESHGEAYSF YQEYARSMGF NTAIQNSRRS KTSREFIDAK 120 FACSRYGTKR EYEKSLNQQR KRQGNKQETD NSTGRRSCAK TDCKACMHVK RRPDGKWIIH 180 RFEKEHNHEL LPAQAVSEQT RKMYAAMARQ FAEYKSVVGL KNDSKNPFDK GRYLTLEAGE 240 AKILLEFFTQ MQIANSNFFY AIDISEDQRL KNLFWLDAKS RHDYINFCDV VSFDTTYVRN 300 KYKMSLALFI GVNQHYQFML LGCALVADES ASTFSWVLQT WLRAMGGQAP KVIITDQDNA 360 MKSVISEVFP STYHCFSLWH ILGKVSDTFS HLVKQHENFT EKLEKCIYRS WTHEEFEKRW 420 RKWVDKFELK ENEWIQSLLE DRTHWAPTYM KDVFLAGMYM PQRSESVNSF FDKYMHKKTS 480 VQEFLKQYES ILQDRYEEEA KADSDTWNKQ PALKSPSPFE KHVSGLYTHA VFKKFQTEVL 540 GAVACHPKRE RQDETTITFR VQDFEKNQEF IVTWNGLKSE VSCICRLFEF KGFLCRHALI 600 VLQICGLSYV PSQYILKRWT KDAKSRCLTG EASEQAQSRV QRYNDLCQRA MKLGEEGSLS 660 QDSYSFAFRA LEDAFGNCVS VNNSNKNLVE TGTSVTAGLL CIEEDNQSRS MSKTSKKKNP 720 TKKRKMNLEQ DVMTVGPQDS LQQMDKLSSR PVLDAYFGPQ QSMQGMVQLN LMAPTRDNYY 780 GTQQTIQGLG QLNSIAPNHD GYYSTQPSLH GLVYFARNVE *

Sequence ? help Back to Top

Protein Sequence Length: 821 aa Download sequence Send to blast

MDIDLRLPSG EHEKEDEEPS GIDNMLDGED KLQNGDEGNG NLVDVGDELN LADGRNMNSS  60
AVDMVVFKED TNLEPLAGME FESHGEAYSF YQEYARSMGF NTAIQNSRRS KTSREFIDAK  120
FACSRYGTKR EYEKSLNQQR KRQGNKQETD NSTGRRSCAK TDCKACMHVK RRPDGKWIIH  180
RFEKEHNHEL LPAQAVSEQT RKMYAAMARQ FAEYKSVVGL KNDSKNPFDK GRYLTLEAGE  240
AKILLEFFTQ MQIANSNFFY AIDISEDQRL KNLFWLDAKS RHDYINFCDV VSFDTTYVRN  300
KYKMSLALFI GVNQHYQFML LGCALVADES ASTFSWVLQT WLRAMGGQAP KVIITDQDNA  360
MKSVISEVFP STYHCFSLWH ILGKVSDTFS HLVKQHENFT EKLEKCIYRS WTHEEFEKRW  420
RKWVDKFELK ENEWIQSLLE DRTHWAPTYM KDVFLAGMYM PQRSESVNSF FDKYMHKKTS  480
VQEFLKQYES ILQDRYEEEA KADSDTWNKQ PALKSPSPFE KHVSGLYTHA VFKKFQTEVL  540
GAVACHPKRE RQDETTITFR VQDFEKNQEF IVTWNGLKSE VSCICRLFEF KGFLCRHALI  600
VLQICGLSYV PSQYILKRWT KDAKSRCLTG EASEQAQSRV QRYNDLCQRA MKLGEEGSLS  660
QDSYSFAFRA LEDAFGNCVS VNNSNKNLVE TGTSVTAGLL CIEEDNQSRS MSKTSKKKNP  720
TKKRKMNLEQ DVMTVGPQDS LQQMDKLSSR PVLDAYFGPQ QSMQGMVQLN LMAPTRDNYY  780
GTQQTIQGLG QLNSIAPNHD GYYSTQPSLH GLVYFARNVE *

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_028080100.1	0.0	protein FAR-RED ELONGATED HYPOCOTYL 3
Refseq	XP_028080101.1	0.0	protein FAR-RED ELONGATED HYPOCOTYL 3
Swissprot	Q9LIE5	0.0	FHY3_ARATH; Protein FAR-RED ELONGATED HYPOCOTYL 3
TrEMBL	A0A2R6PUS0	0.0	A0A2R6PUS0_ACTCH; Protein FAR-RED ELONGATED HYPOCOTYL like
STRING	VIT_03s0017g01780.t01	0.0	(Vitis vinifera)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Asterids	OGEA496	21	103

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]