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

FANhyb_rscf00000584.1.g00004.1

Organism

Fragaria x ananassa

Taxonomic ID

3747

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Rosales; Rosaceae; Rosoideae; Potentilleae; Fragariinae; Fragaria

Family

FAR1

Protein Properties

Length: 794aa MW: 90882 Da PI: 6.216

Description

FAR1 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
FANhyb_rscf00000584.1.g00004.1	genome	kazusa	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	FAR1	83.7	2.9e-26	89	191	1	90
FAR1 1 kfYneYAkevGFsvrkskskkskrngeitkrtfvCskegkreeekkk.............tekerrtraetrtgCkakl 66 +fY+eYA+++GF++ +++s++sk+++e+++++f Cs++g+++e +k+ e++ +r+ ++t+Cka++ FANhyb_rscf00000584.1.g00004.1 89 SFYQEYARSMGFNTAIQNSRRSKTSREFIDAKFACSRYGTKREYDKTynnkprarqskqdPENATGRRSCSKTDCKASM 167 5****************************************999999999988776555555559999***** PP FAR1 67 kvkkekdgkwevtkleleHnHela 90 +vk+++dgkw+++++++eHnH l FANhyb_rscf00000584.1.g00004.1 168 HVKRRSDGKWVIHNFVKEHNHGLL 191 *******************997 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF03101	4.2E-24	89	192	IPR004330	FAR1 DNA binding domain
Pfam	PF10551	8.9E-31	290	382	IPR018289	MULE transposase domain
PROSITE profile	PS50966	10.151	516	552	IPR007527	Zinc finger, SWIM-type
Pfam	PF04434	1.1E-6	526	551	IPR007527	Zinc finger, SWIM-type
SMART	SM00575	1.3E-5	527	554	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: 794 aa Download sequence Send to blast
MDIDLRLPSG DHDKEDEEPN AIDNMLEHEE KMHNGDIESA HIVDDRDEVH AEDGGDLNSP 60 TADMVIFNED TNLEPLFGME FESHGEAYSF YQEYARSMGF NTAIQNSRRS KTSREFIDAK 120 FACSRYGTKR EYDKTYNNKP RARQSKQDPE NATGRRSCSK TDCKASMHVK RRSDGKWVIH 180 NFVKEHNHGL LPAQAVSEQT RKMYAAMARQ FAEYKNVVGL KNDPKNPFDK GRNLSLEAGD 240 LKMLLEFFTH MQSMNSNFFY AIDLGEDQCL KTLLWVDGKS RHDYINFNDV VSLDTTYIRS 300 KYKMPLVLFV GVNQHYQFVL LGCALVSDES ATTFSWLMQT WLKAMGGQAP KVIISDHDQS 360 IKSVVSEVFP NAHHCFCLWN ILGKVSENLG HVIKRHENFL ANFEECIHRP STTEEFEKRW 420 CDIVDEYELK DNDWTQSLYE DRKQWVPTYM TNVCLAGMST VQRSDSVNSF FDKYVHKKTT 480 VQEFLKQYGA ILQDRDRQDE MTTTYRVHDC EKNQDFTVAW NEMKLEVSCS CCLFEYRGYL 540 CRHALIVLQM CQIGTIPDQY ILKRWTKDAK SRHLVVQEPG DVPSRVQKFD DLSQRAMKLI 600 GEGSLSQESY TIVCHALEEA FGNCLAVNNS SKSLVEAGTS GTQGLPCIED DIQNRSIGKG 660 SKKKNPTKKR KVNSEPEVMT VGAQESLQQM DKLNSRAITI DGYYGGQQNV QGMVQLNLMA 720 PTRDNYYGNQ VNQQTIQGLG QLNSIAPSHE SYFSAQQSMH GLGQMEFFRT GFTYIRDDPN 780 VRTAPLHDDA SRHA

Sequence ? help Back to Top

Protein Sequence Length: 794 aa Download sequence Send to blast

MDIDLRLPSG DHDKEDEEPN AIDNMLEHEE KMHNGDIESA HIVDDRDEVH AEDGGDLNSP  60
TADMVIFNED TNLEPLFGME FESHGEAYSF YQEYARSMGF NTAIQNSRRS KTSREFIDAK  120
FACSRYGTKR EYDKTYNNKP RARQSKQDPE NATGRRSCSK TDCKASMHVK RRSDGKWVIH  180
NFVKEHNHGL LPAQAVSEQT RKMYAAMARQ FAEYKNVVGL KNDPKNPFDK GRNLSLEAGD  240
LKMLLEFFTH MQSMNSNFFY AIDLGEDQCL KTLLWVDGKS RHDYINFNDV VSLDTTYIRS  300
KYKMPLVLFV GVNQHYQFVL LGCALVSDES ATTFSWLMQT WLKAMGGQAP KVIISDHDQS  360
IKSVVSEVFP NAHHCFCLWN ILGKVSENLG HVIKRHENFL ANFEECIHRP STTEEFEKRW  420
CDIVDEYELK DNDWTQSLYE DRKQWVPTYM TNVCLAGMST VQRSDSVNSF FDKYVHKKTT  480
VQEFLKQYGA ILQDRDRQDE MTTTYRVHDC EKNQDFTVAW NEMKLEVSCS CCLFEYRGYL  540
CRHALIVLQM CQIGTIPDQY ILKRWTKDAK SRHLVVQEPG DVPSRVQKFD DLSQRAMKLI  600
GEGSLSQESY TIVCHALEEA FGNCLAVNNS SKSLVEAGTS GTQGLPCIED DIQNRSIGKG  660
SKKKNPTKKR KVNSEPEVMT VGAQESLQQM DKLNSRAITI DGYYGGQQNV QGMVQLNLMA  720
PTRDNYYGNQ VNQQTIQGLG QLNSIAPSHE SYFSAQQSMH GLGQMEFFRT GFTYIRDDPN  780
VRTAPLHDDA SRHA

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_011467677.1	0.0	PREDICTED: protein FAR-RED ELONGATED HYPOCOTYL 3
Swissprot	Q9LIE5	0.0	FHY3_ARATH; Protein FAR-RED ELONGATED HYPOCOTYL 3
TrEMBL	A0A2P6S0Q3	0.0	A0A2P6S0Q3_ROSCH; Putative transcription factor FAR family
STRING	XP_004303947.1	0.0	(Fragaria vesca)

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]