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

XP_008229656.1

Organism

Prunus mume

Taxonomic ID

102107

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Rosales; Rosaceae; Maloideae; Amygdaleae; Prunus

Family

FAR1

Protein Properties

Length: 895aa MW: 102695 Da PI: 6.6621

Description

FAR1 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_008229656.1	genome	BGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	FAR1	84.8	1.3e-26	136	238	1	91
FAR1 1 kfYneYAkevGFsvrkskskkskrngeitkrtfvCskegkreeekkk............tekerrtraetrtgCkaklkvkkekdgkwevtklel 83 +fY+eYA+++GF++ +++s++sk+++e+++++f Cs++g+++e +k+ e++ +r+ ++t+Cka+++vk++ dgkw+++++++ XP_008229656.1 136 SFYQEYARSMGFNTAIQNSRRSKTSREFIDAKFACSRYGTKREYDKSynrprarqnkqdPENATGRRSCSKTDCKASMHVKRRPDGKWVIHNFVK 230 5****************************************99999999988776554555559999********************** PP FAR1 84 eHnHelap 91 eHnHel p XP_008229656.1 231 EHNHELLP 238 ***975 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF03101	1.9E-24	136	238	IPR004330	FAR1 DNA binding domain
Pfam	PF10551	1.5E-33	336	428	IPR018289	MULE transposase domain
PROSITE profile	PS50966	8.889	616	652	IPR007527	Zinc finger, SWIM-type
SMART	SM00575	1.9E-6	627	654	IPR006564	Zinc finger, PMZ-type
Pfam	PF04434	2.1E-4	628	650	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: 895 aa Download sequence Send to blast
MLEEEDVIIF LTLTRLDNLV GSVSYIVLRM SKMIFSDNNQ LKLNNLTMDI DLRLPSGEPD 60 KEDEEPHGID NMLEHEEKLQ NGDIENGNIV DVRDEVHAED GGDLNSPTAD MVVFKEDTNL 120 EPLFGMEFAS HGEAYSFYQE YARSMGFNTA IQNSRRSKTS REFIDAKFAC SRYGTKREYD 180 KSYNRPRARQ NKQDPENATG RRSCSKTDCK ASMHVKRRPD GKWVIHNFVK EHNHELLPAQ 240 AVSEQTRKMY AAMARQFAEY KNVVGLKNDP KNPFDKGRNL ALEAGDLKIL LDFFTQMQNM 300 NSNFFYAIDL GEDQRLKSLF WVDAKSRHDY INFSDVVSFD TTYIRNKYKM PLVLFVGVNQ 360 HYQFVLLGCA LVSDESTTTF SWLMQTWLKA MGGQAPKVII TDHDKSIKSV ISEVFPNAYH 420 CFCLWHILGK VSENLGHVIK RHENFMAKFE KCIHRSSTNE EFEKRWWKIL EKFELKDDEW 480 TQSLYEDRKQ WVPTYMRDVC LAGMSVVQRS ESVNSFFDKY VHKKTTVQEF LKQYEAILQD 540 RYEEEAKADS DTWNKQPTLR SPSPLEKSVS GVYTHAVFKK FQVEVLGAVA CHPKREGQDE 600 TTITFRVQDF EKNQDFIVTW NEMKTEVSCL CCLFEYKGYL CRHALIVLQI CGLSAIPVQY 660 ILKRWTKDVK NRHLVGEESD HGLSRVQKFN DLCQRAMKVI EEGSLSQESY SVACRALEEA 720 FGNCVSVNNS SKSLIEAGTS SVTHGLLCIE DDSQNRSMGK TNKKKNPTKK RKVNSEPDVM 780 TVGAQDSLQQ MDKLNPRAVT LDGYYGAQQS VQGMVQLNLM APTRDNYYGN QQTIQGLGQL 840 NSIAPSHDGY YSAQQSMHGL GQMDFFRTPG GFTYGMRDDP NVRTAPLHDD ASRHA

Sequence ? help Back to Top

Protein Sequence Length: 895 aa Download sequence Send to blast

MLEEEDVIIF LTLTRLDNLV GSVSYIVLRM SKMIFSDNNQ LKLNNLTMDI DLRLPSGEPD  60
KEDEEPHGID NMLEHEEKLQ NGDIENGNIV DVRDEVHAED GGDLNSPTAD MVVFKEDTNL  120
EPLFGMEFAS HGEAYSFYQE YARSMGFNTA IQNSRRSKTS REFIDAKFAC SRYGTKREYD  180
KSYNRPRARQ NKQDPENATG RRSCSKTDCK ASMHVKRRPD GKWVIHNFVK EHNHELLPAQ  240
AVSEQTRKMY AAMARQFAEY KNVVGLKNDP KNPFDKGRNL ALEAGDLKIL LDFFTQMQNM  300
NSNFFYAIDL GEDQRLKSLF WVDAKSRHDY INFSDVVSFD TTYIRNKYKM PLVLFVGVNQ  360
HYQFVLLGCA LVSDESTTTF SWLMQTWLKA MGGQAPKVII TDHDKSIKSV ISEVFPNAYH  420
CFCLWHILGK VSENLGHVIK RHENFMAKFE KCIHRSSTNE EFEKRWWKIL EKFELKDDEW  480
TQSLYEDRKQ WVPTYMRDVC LAGMSVVQRS ESVNSFFDKY VHKKTTVQEF LKQYEAILQD  540
RYEEEAKADS DTWNKQPTLR SPSPLEKSVS GVYTHAVFKK FQVEVLGAVA CHPKREGQDE  600
TTITFRVQDF EKNQDFIVTW NEMKTEVSCL CCLFEYKGYL CRHALIVLQI CGLSAIPVQY  660
ILKRWTKDVK NRHLVGEESD HGLSRVQKFN DLCQRAMKVI EEGSLSQESY SVACRALEEA  720
FGNCVSVNNS SKSLIEAGTS SVTHGLLCIE DDSQNRSMGK TNKKKNPTKK RKVNSEPDVM  780
TVGAQDSLQQ MDKLNPRAVT LDGYYGAQQS VQGMVQLNLM APTRDNYYGN QQTIQGLGQL  840
NSIAPSHDGY YSAQQSMHGL GQMDFFRTPG GFTYGMRDDP NVRTAPLHDD ASRHA

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	XP_008229656.1

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_008229656.1	0.0	PREDICTED: protein FAR-RED ELONGATED HYPOCOTYL 3
Swissprot	Q9LIE5	0.0	FHY3_ARATH; Protein FAR-RED ELONGATED HYPOCOTYL 3
TrEMBL	A0A251Q297	0.0	A0A251Q297_PRUPE; Uncharacterized protein
STRING	XP_008229656.1	0.0	(Prunus mume)

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]