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

Itr_sc000011.1_g00131.1

Organism

Ipomoea trifida

Taxonomic ID

35884

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Convolvulaceae; Ipomoeeae; Ipomoea

Family

FAR1

Protein Properties

Length: 749aa MW: 85158.4 Da PI: 5.1768

Description

FAR1 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Itr_sc000011.1_g00131.1	genome	Kazusa	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	FAR1	82.2	8.7e-26	50	149	2	91
FAR1 2 fYneYAkevGFsvrkskskks...krngeitkrtfvCskegkreeekkk.......tekerrtraetrtgCkaklkvkkekdgkwe 77 fY+eYA+++GF++ +++s++s + ge+++++f Cs++g+++ + k+ ++ e+ + +++t+Cka+++vk+++dg+w Itr_sc000011.1_g00131.1 50 FYQEYARTMGFETATQNSRRSkvsGELGEFIDAKFACSRSGTKRGNGKSakapgssQDPENAEGRSKKTDCKACMHVKRRSDGRWT 135 9******************443455689***********9999999999888899999******************** PP FAR1 78 vtkleleHnHelap 91 ++k+e+eHnHel+p Itr_sc000011.1_g00131.1 136 IHKFEKEHNHELSP 149 **********86 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF03101	2.4E-22	50	149	IPR004330	FAR1 DNA binding domain
Pfam	PF10551	8.3E-25	242	330	IPR018289	MULE transposase domain
PROSITE profile	PS50966	10.534	524	561	IPR007527	Zinc finger, SWIM-type
Pfam	PF04434	2.5E-4	534	558	IPR007527	Zinc finger, SWIM-type
SMART	SM00575	1.5E-4	536	563	IPR006564	Zinc finger, PMZ-type

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0008270	Molecular Function	zinc ion binding

Sequence ? help Back to Top
Protein Sequence Length: 749 aa Download sequence Send to blast
MDKDDKAETN DAVNNEERLD NGDEVGEFQD VNLEPPADIE FESRDEASAF YQEYARTMGF 60 ETATQNSRRS KVSGELGEFI DAKFACSRSG TKRGNGKSAK APGSSQDPEN AEGRSKKTDC 120 KACMHVKRRS DGRWTIHKFE KEHNHELSPP EAVSEQTRRV YAAMTRQLAE FKNVVAIKSD 180 EGGQNLAMDA GEANILLEFF TQMQSMNSNF FYAVEVSEDH RLKNFLWVDA KSRHDYTHFS 240 DVVSFDATYV RNKYKIPMAL FIGVNHHYQF VLLGAALLSD ETSATLSWVM RTWLRAMGGQ 300 APKAIVTDHE QAMTSVISEI FPSSLHFFCL GKVTESVKNA VKHNEEEFMV KFEECIYRTW 360 TDEEFEERWK TLINMFELKE NELFLSLYEE RRKWVPTLMR KNAAFLGGMS SAVRSETESV 420 NSFFDKYVQK NTTLQEFVKQ YEAILQYRYE EEAKADSDTS NEQPVLKTSS PFEKHMAGVY 480 THSVFTKFQI EAVGVVACVL VSQKQDEKGS ITYRIKDCEK DQDFMVIVNE DKPEEVCCTC 540 HLFELKGYVC RHLMVVLQIR GISTIPQQYV MKRWTKDAKN RYPLLAESGE NKSRVQRYND 600 LCQRAMLLSE EGSLSQESYT SALHALDEAY GNCVGALTSS TPGLLVEGDN QTRKTNKKKS 660 NPTKKRKVTS EEQDVMIAGG APDNFAQSDM STSTPMTLDG YCPQLPQGVQ GMLNLMAPNY 720 GNQQTMQEES KVRSSSQLND NEDEDPRQA

Sequence ? help Back to Top

Protein Sequence Length: 749 aa Download sequence Send to blast

MDKDDKAETN DAVNNEERLD NGDEVGEFQD VNLEPPADIE FESRDEASAF YQEYARTMGF  60
ETATQNSRRS KVSGELGEFI DAKFACSRSG TKRGNGKSAK APGSSQDPEN AEGRSKKTDC  120
KACMHVKRRS DGRWTIHKFE KEHNHELSPP EAVSEQTRRV YAAMTRQLAE FKNVVAIKSD  180
EGGQNLAMDA GEANILLEFF TQMQSMNSNF FYAVEVSEDH RLKNFLWVDA KSRHDYTHFS  240
DVVSFDATYV RNKYKIPMAL FIGVNHHYQF VLLGAALLSD ETSATLSWVM RTWLRAMGGQ  300
APKAIVTDHE QAMTSVISEI FPSSLHFFCL GKVTESVKNA VKHNEEEFMV KFEECIYRTW  360
TDEEFEERWK TLINMFELKE NELFLSLYEE RRKWVPTLMR KNAAFLGGMS SAVRSETESV  420
NSFFDKYVQK NTTLQEFVKQ YEAILQYRYE EEAKADSDTS NEQPVLKTSS PFEKHMAGVY  480
THSVFTKFQI EAVGVVACVL VSQKQDEKGS ITYRIKDCEK DQDFMVIVNE DKPEEVCCTC  540
HLFELKGYVC RHLMVVLQIR GISTIPQQYV MKRWTKDAKN RYPLLAESGE NKSRVQRYND  600
LCQRAMLLSE EGSLSQESYT SALHALDEAY GNCVGALTSS TPGLLVEGDN QTRKTNKKKS  660
NPTKKRKVTS EEQDVMIAGG APDNFAQSDM STSTPMTLDG YCPQLPQGVQ GMLNLMAPNY  720
GNQQTMQEES KVRSSSQLND NEDEDPRQA

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}.

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_019230456.1	0.0	PREDICTED: protein FAR-RED ELONGATED HYPOCOTYL 3 isoform X2
Refseq	XP_019230457.1	0.0	PREDICTED: protein FAR-RED ELONGATED HYPOCOTYL 3 isoform X2
Swissprot	Q9LIE5	0.0	FHY3_ARATH; Protein FAR-RED ELONGATED HYPOCOTYL 3
TrEMBL	A0A1S3YBU3	0.0	A0A1S3YBU3_TOBAC; protein FAR-RED ELONGATED HYPOCOTYL 3-like isoform X2
STRING	XP_009610341.1	0.0	(Nicotiana tomentosiformis)

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]