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

Pbr004706.1

Organism

Pyrus bretschneideri

Taxonomic ID

225117

Taxonomic Lineage

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

Family

FAR1

Protein Properties

Length: 575aa MW: 67060.9 Da PI: 6.1867

Description

FAR1 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Pbr004706.1	genome	CPETR	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	FAR1	86	5.7e-27	104	206	1	91
FAR1 1 kfYneYAkevGFsvrkskskkskrngeitkrtfvCskegkreeekkk............tekerr....traetrtgCkaklkvkkekdgkwevtkle 82 +fY+eYA+++GF++ +++s++sk+++e+++++f Cs++g+++e +k+ + +r+ ++t+Cka+++vk++ dgkw++++++ Pbr004706.1 104 SFYQEYARSMGFNTAIQNSRRSKTSREFIDAKFACSRYGTKREYDKSynrprarqnkqdP----EnptgRRSCSKTDCKASMHVKRRPDGKWVIHNFV 197 5****************************************99999999977655443....144559999********************* PP FAR1 83 leHnHelap 91 +eHnHel p Pbr004706.1 198 KEHNHELLP 206 ****975 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF03101	8.4E-25	104	206	IPR004330	FAR1 DNA binding domain
Pfam	PF10551	5.3E-33	304	396	IPR018289	MULE transposase domain

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

Sequence ? help Back to Top
Protein Sequence Length: 575 aa Download sequence Send to blast
MMFSDSNQLK LNNLTMDIDL RLPSGEHGKE DEEPHEIDNL LEHEEKAHNG DIASENIEDI 60 RDEVRVEDGG DLNSPTPDMV VFKEDTNLEP LFGMEFESHG EAYSFYQEYA RSMGFNTAIQ 120 NSRRSKTSRE FIDAKFACSR YGTKREYDKS YNRPRARQNK QDPENPTGRR SCSKTDCKAS 180 MHVKRRPDGK WVIHNFVKEH NHELLPAQAV SEQTRKMYAA MARQFAEYKN VVGLKSDPKN 240 PFDKGRNLAL EAGDLKILLE FFMQMQSMNS NFFYAVDLGE DQRLKSLFWV DAKSRHDYIH 300 FSDIVSFDTT YVRNKYKMPL ALFVGVNQHY QFVLLGCALV SDESTSTFSW LMQTWLKAMG 360 GQAPKVIITD HDKSIKSVVV EVFPNAYHCF CLWHILGKVS ENLGHVIKQH QNFMAEFEKC 420 IHRSSTNEEF EKRWWEILEN FDLKEDEWTQ LLYEDRKQWV PTYMRDVCLA GMSAGQRSDS 480 VNSFFDKYVH KKTTVQEFLK QYEAILQDRY DEEAKADYDT WNKPPTLRSP SPLEKSXXXX 540 XXXXXXXXXX XXXXXXXXER LRAVHTCSIQ ENSR*

Sequence ? help Back to Top

Protein Sequence Length: 575 aa Download sequence Send to blast

MMFSDSNQLK LNNLTMDIDL RLPSGEHGKE DEEPHEIDNL LEHEEKAHNG DIASENIEDI  60
RDEVRVEDGG DLNSPTPDMV VFKEDTNLEP LFGMEFESHG EAYSFYQEYA RSMGFNTAIQ  120
NSRRSKTSRE FIDAKFACSR YGTKREYDKS YNRPRARQNK QDPENPTGRR SCSKTDCKAS  180
MHVKRRPDGK WVIHNFVKEH NHELLPAQAV SEQTRKMYAA MARQFAEYKN VVGLKSDPKN  240
PFDKGRNLAL EAGDLKILLE FFMQMQSMNS NFFYAVDLGE DQRLKSLFWV DAKSRHDYIH  300
FSDIVSFDTT YVRNKYKMPL ALFVGVNQHY QFVLLGCALV SDESTSTFSW LMQTWLKAMG  360
GQAPKVIITD HDKSIKSVVV EVFPNAYHCF CLWHILGKVS ENLGHVIKQH QNFMAEFEKC  420
IHRSSTNEEF EKRWWEILEN FDLKEDEWTQ LLYEDRKQWV PTYMRDVCLA GMSAGQRSDS  480
VNSFFDKYVH KKTTVQEFLK QYEAILQDRY DEEAKADYDT WNKPPTLRSP SPLEKSXXXX  540
XXXXXXXXXX XXXXXXXXER LRAVHTCSIQ ENSR*

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	Pbr004706.1

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_009349574.1	0.0	PREDICTED: protein FAR-RED ELONGATED HYPOCOTYL 3 isoform X1
Refseq	XP_018501478.1	0.0	PREDICTED: protein FAR-RED ELONGATED HYPOCOTYL 3 isoform X2
Swissprot	Q9LIE5	0.0	FHY3_ARATH; Protein FAR-RED ELONGATED HYPOCOTYL 3
TrEMBL	A0A251Q297	0.0	A0A251Q297_PRUPE; Uncharacterized protein
TrEMBL	A0A251Q2F9	0.0	A0A251Q2F9_PRUPE; Uncharacterized protein
STRING	XP_009349574.1	0.0	(Pyrus x bretschneideri)

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]