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

Araip.P9FMN

Organism

Arachis ipaensis

Taxonomic ID

130454

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fabales; Fabaceae; Papilionoideae; Dalbergieae; Arachis

Family

FAR1

Protein Properties

Length: 585aa MW: 66138.4 Da PI: 7.98

Description

FAR1 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Araip.P9FMN	genome	NCGR_PGC	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	FAR1	86.7	3.4e-27	111	213	1	91
FAR1 1 kfYneYAkevGFsvrkskskkskrngeitkrtfvCskegkreeekkk............tekerrtraetrtgCkaklkvkkekdgkwevtkleleHn 86 +fY+eYA+++GF++ +++s++sk+++e+++++f Cs++g+++e +k+ +e++ +r+ ++t+Cka+++vk+++dgkw+++++++eHn Araip.P9FMN 111 SFYQEYARSMGFNTAIQNSRRSKTSREFIDAKFACSRYGTKREYDKSfnrprarqskpdSENSTGRRSCSKTDCKASMHVKRKHDGKWVIHSFVKEHN 208 5******************************************99999999987777777999*************************** PP FAR1 87 Helap 91 Hel p Araip.P9FMN 209 HELLP 213 975 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF03101	4.5E-25	111	213	IPR004330	FAR1 DNA binding domain
PROSITE profile	PS50966	9.681	330	366	IPR007527	Zinc finger, SWIM-type
Pfam	PF04434	1.3E-5	337	364	IPR007527	Zinc finger, SWIM-type
SMART	SM00575	2.3E-6	341	368	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: 585 aa Download sequence Send to blast
MASVTAAICL TLHIIKKKAV LNMDIDLRLP SGEHDKEDEE TATIDNILDG EEKLNNGAME 60 GRNMVDPGME LQALNGGDLN SPTLDMVIFK EDTNLEPLSG MEFESHGEAY SFYQEYARSM 120 GFNTAIQNSR RSKTSREFID AKFACSRYGT KREYDKSFNR PRARQSKPDS ENSTGRRSCS 180 KTDCKASMHV KRKHDGKWVI HSFVKEHNHE LLPAQAVSEQ TRRMYAAMAR QFAEYKTVTS 240 VQDFVKLYEA ILQDRYEEEA KADSDTWNKV ATLKTPSPLE KSVAGVYTHA VFKKIQAEVV 300 GAVACHPKAD RQDETTIIHR VHDMQSNKDF FVVVNQVKSE WSCICRLFEY RGYLCRHILI 360 VLQYSGHSAI PSHYILKRWT KDAKVRNIMG EESEHMLARV QRYNDLCQRA FKLSEEGSLS 420 QESYSIAVHA LHEAQKSCVS VNNSGKSPME VGTSVTHAQL STEEDTQSRN MGKSNKKKNP 480 AKKKKDKFST RAAVTLDGYY GTQQQVQGML NLMGPRDDFY GNQQTLQGLG PISSIPTSHD 540 GYYSAHQGMP NLAQLDFLRT GFTYGIRDDP NVRAAQLHED PSRHA

Sequence ? help Back to Top

Protein Sequence Length: 585 aa Download sequence Send to blast

MASVTAAICL TLHIIKKKAV LNMDIDLRLP SGEHDKEDEE TATIDNILDG EEKLNNGAME  60
GRNMVDPGME LQALNGGDLN SPTLDMVIFK EDTNLEPLSG MEFESHGEAY SFYQEYARSM  120
GFNTAIQNSR RSKTSREFID AKFACSRYGT KREYDKSFNR PRARQSKPDS ENSTGRRSCS  180
KTDCKASMHV KRKHDGKWVI HSFVKEHNHE LLPAQAVSEQ TRRMYAAMAR QFAEYKTVTS  240
VQDFVKLYEA ILQDRYEEEA KADSDTWNKV ATLKTPSPLE KSVAGVYTHA VFKKIQAEVV  300
GAVACHPKAD RQDETTIIHR VHDMQSNKDF FVVVNQVKSE WSCICRLFEY RGYLCRHILI  360
VLQYSGHSAI PSHYILKRWT KDAKVRNIMG EESEHMLARV QRYNDLCQRA FKLSEEGSLS  420
QESYSIAVHA LHEAQKSCVS VNNSGKSPME VGTSVTHAQL STEEDTQSRN MGKSNKKKNP  480
AKKKKDKFST RAAVTLDGYY GTQQQVQGML NLMGPRDDFY GNQQTLQGLG PISSIPTSHD  540
GYYSAHQGMP NLAQLDFLRT GFTYGIRDDP NVRAAQLHED PSRHA

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

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Araip.P9FMN

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 -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AP015040	0.0	AP015040.1 Vigna angularis var. angularis DNA, chromosome 7, almost complete sequence, cultivar: Shumari.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_025624748.1	0.0	protein FAR-RED ELONGATED HYPOCOTYL 3 isoform X4
Swissprot	Q9LIE5	1e-122	FHY3_ARATH; Protein FAR-RED ELONGATED HYPOCOTYL 3
TrEMBL	A0A0A0KV81	0.0	A0A0A0KV81_CUCSA; Uncharacterized protein
STRING	XP_007148758.1	0.0	(Phaseolus vulgaris)

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	1e-120	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]