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

Niben101Scf02807g11013.1

Organism

Nicotiana benthamiana

Taxonomic ID

4100

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Nicotianoideae; Nicotianeae; Nicotiana

Family

FAR1

Protein Properties

Length: 963aa MW: 109475 Da PI: 6.6765

Description

FAR1 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Niben101Scf02807g11013.1	genome	BTI	-

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	FAR1	85	1.2e-26	91	193	2	91
FAR1 2 fYneYAkevGFsvrkskskkskrngeitkrtfvCskegkreeekkk.............tekerrtraetrtgCkaklkvkkekd 73 fY+eYA+++GF++ +++s++sk+++e+++++f Cs++g+++e +k+ e++ +ra +t+Cka+++vk++ d Niben101Scf02807g11013.1 91 FYQEYARSMGFNTAIQNSRRSKTSREFIDAKFACSRYGTKREYEKSanrprsrqgnkqdPENATGRRACAKTDCKASMHVKRRPD 175 9*************************************999999899999888776555556699************** PP FAR1 74 gkwevtkleleHnHelap 91 gkw ++++e+eHnHel p Niben101Scf02807g11013.1 176 GKWIIHRFEKEHNHELLP 193 *************975 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF03101	1.4E-24	91	193	IPR004330	FAR1 DNA binding domain
Pfam	PF10551	8.2E-29	291	383	IPR018289	MULE transposase domain
PROSITE profile	PS50966	9.557	571	607	IPR007527	Zinc finger, SWIM-type
Pfam	PF04434	7.6E-6	572	605	IPR007527	Zinc finger, SWIM-type
SMART	SM00575	1.1E-6	582	609	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: 963 aa Download sequence Send to blast
MDIDLRLPSR DHDKEEEEEQ NGIINMLDNE EKMHSDDGMH GMLVVVEEKM HAEDGGDMNT 60 PVANIIEFKE DVNLEPLAGM EFESHGEAYA FYQEYARSMG FNTAIQNSRR SKTSREFIDA 120 KFACSRYGTK REYEKSANRP RSRQGNKQDP ENATGRRACA KTDCKASMHV KRRPDGKWII 180 HRFEKEHNHE LLPAQAVSEQ TRRMYAAMAR KFAEYKNVVG LKSDSKGPFE KGRNSAMDGG 240 DINILLEFFI QMQSLNSNFF YAVDVGEDQR VKNLIWVDAK ARHDYANFSD VVSFDTTYIR 300 NKYKMPLALF VGVNQHYQFM LLGCALVSDE SATTFSWVML TWLKAMGGQA PKTVITDHDQ 360 VLKSVISEAL PSSLHYFCMW HILGKVSETL NHVIKQNEKF MAKFEKCIYR SSTDEEFEKR 420 WRKLVDRFDL REAELIHSLY EDRVKWIPTF MGDAFLAGMS TVQRSESVNS FFDKYVHKKT 480 TVQEFVKQYE TILQDRYEEE AKADSDTWNK QPALKSPSPF EKHVAGLYTH AVFKKFQAEV 540 LGAVACIPKR EQQDETTITF GVKDYEKDQD FIVTLNEVKS EISCVCHLFE FKGYLCRHAL 600 IVLQICGVSS IPLQYILKRW TKDAKSKYSM TDGSEDVQSR VQRYNELCYR AMKLSEEGSL 660 SQESYSFALR ALDDAFGSCV TFNNSNKNIL EAGTSSAPAL LCVEDDNQSR SMSKTNKKKN 720 SFTKKRKVNS EPDVMAVGAA DSLQQMDKLN SRPVTLDGYF GPQQSVQGMV QLNLMAPTRD 780 NYYGNQQTIQ GLGQLNSIAP THDGYYGAQP TMHGLGRMDF FRTPSFPYGI RVNSEPDVMA 840 VGAADSLQQM DKLNSRPVTL DGYFGPQQSV QGMVQLNLMA PTRDNYYGNQ QTIQGLGQLN 900 SIAPTHDGYY GAQPTMHGLG QMDFFRAPSF PYGIREKVNI FQLELQAVVG STANRKDLCS 960 ACL

Sequence ? help Back to Top

Protein Sequence Length: 963 aa Download sequence Send to blast

MDIDLRLPSR DHDKEEEEEQ NGIINMLDNE EKMHSDDGMH GMLVVVEEKM HAEDGGDMNT  60
PVANIIEFKE DVNLEPLAGM EFESHGEAYA FYQEYARSMG FNTAIQNSRR SKTSREFIDA  120
KFACSRYGTK REYEKSANRP RSRQGNKQDP ENATGRRACA KTDCKASMHV KRRPDGKWII  180
HRFEKEHNHE LLPAQAVSEQ TRRMYAAMAR KFAEYKNVVG LKSDSKGPFE KGRNSAMDGG  240
DINILLEFFI QMQSLNSNFF YAVDVGEDQR VKNLIWVDAK ARHDYANFSD VVSFDTTYIR  300
NKYKMPLALF VGVNQHYQFM LLGCALVSDE SATTFSWVML TWLKAMGGQA PKTVITDHDQ  360
VLKSVISEAL PSSLHYFCMW HILGKVSETL NHVIKQNEKF MAKFEKCIYR SSTDEEFEKR  420
WRKLVDRFDL REAELIHSLY EDRVKWIPTF MGDAFLAGMS TVQRSESVNS FFDKYVHKKT  480
TVQEFVKQYE TILQDRYEEE AKADSDTWNK QPALKSPSPF EKHVAGLYTH AVFKKFQAEV  540
LGAVACIPKR EQQDETTITF GVKDYEKDQD FIVTLNEVKS EISCVCHLFE FKGYLCRHAL  600
IVLQICGVSS IPLQYILKRW TKDAKSKYSM TDGSEDVQSR VQRYNELCYR AMKLSEEGSL  660
SQESYSFALR ALDDAFGSCV TFNNSNKNIL EAGTSSAPAL LCVEDDNQSR SMSKTNKKKN  720
SFTKKRKVNS EPDVMAVGAA DSLQQMDKLN SRPVTLDGYF GPQQSVQGMV QLNLMAPTRD  780
NYYGNQQTIQ GLGQLNSIAP THDGYYGAQP TMHGLGRMDF FRTPSFPYGI RVNSEPDVMA  840
VGAADSLQQM DKLNSRPVTL DGYFGPQQSV QGMVQLNLMA PTRDNYYGNQ QTIQGLGQLN  900
SIAPTHDGYY GAQPTMHGLG QMDFFRAPSF PYGIREKVNI FQLELQAVVG STANRKDLCS  960
ACL

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_009804948.1	0.0	PREDICTED: protein FAR-RED ELONGATED HYPOCOTYL 3 isoform X3
Refseq	XP_009804949.1	0.0	PREDICTED: protein FAR-RED ELONGATED HYPOCOTYL 3 isoform X3
Refseq	XP_016481998.1	0.0	PREDICTED: protein FAR-RED ELONGATED HYPOCOTYL 3-like isoform X3
Refseq	XP_016481999.1	0.0	PREDICTED: protein FAR-RED ELONGATED HYPOCOTYL 3-like isoform X3
Swissprot	Q9LIE5	0.0	FHY3_ARATH; Protein FAR-RED ELONGATED HYPOCOTYL 3
TrEMBL	A0A1S4AZK2	0.0	A0A1S4AZK2_TOBAC; protein FAR-RED ELONGATED HYPOCOTYL 3-like isoform X3
TrEMBL	A0A1U7YPD6	0.0	A0A1U7YPD6_NICSY; protein FAR-RED ELONGATED HYPOCOTYL 3 isoform X3
STRING	XP_009804946.1	0.0	(Nicotiana sylvestris)

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]