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

Neem_3898_f_2

Organism

Azadirachta indica

Taxonomic ID

124943

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Sapindales; Meliaceae; Azadirachta

Family

FAR1

Protein Properties

Length: 636aa MW: 72669 Da PI: 7.6886

Description

FAR1 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Neem_3898_f_2	genome	NGD	View Nucleic Acid

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	FAR1	89.8	3.8e-28	29	115	2	91
FAR1 2 fYneYAkevGFsvrkskskkskrngeitkrtfvCskegkreeekkktekerrtraetrtgCkaklkvkkekdgkwevtkleleHnHelap 91 fY+eYAk++GF++++++s++sk+++e+++++f Cs++g++ e+++ ++r++++++t+Cka+++vk++ d+kw ++++ +eHnHel p Neem_3898_f_2 29 FYQEYAKSMGFTTSIKNSRRSKKSKEFIDAKFACSRYGFTPESDSG---SSRRSSVKKTDCKASMHVKRRADAKWIIHEFIKEHNHELLP 115 9**************************************99888...889999******************************975 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF03101	1.8E-25	29	115	IPR004330	FAR1 DNA binding domain
PROSITE profile	PS50966	9.137	352	388	IPR007527	Zinc finger, SWIM-type
SMART	SM00575	1.8E-5	363	390	IPR006564	Zinc finger, PMZ-type

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0010018	Biological Process	far-red light signaling pathway
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: 636 aa Download sequence Send to blast
MAVVGLEGES SFEPRNGIEF ESHEAAYAFY QEYAKSMGFT TSIKNSRRSK KSKEFIDAKF 60 ACSRYGFTPE SDSGSSRRSS VKKTDCKASM HVKRRADAKW IIHEFIKEHN HELLPALAYH 120 FRIGRNVKLA EKNNIDILHA VSERTRKTYV EMSRQSAGCR NGGFLSDLDN QFDKGRFLPL 180 DEGDAQKCIL KSWTDEEFDM RWWKMVTRFE LQDDEWVQSL YEDRKKWVPT YMGDTFLAGM 240 STTQRSESMN SFFDKYIHKK ITLKEFVKQY GNILQNRYEE EAIADFDTWH KQPALKSPSP 300 WEKQMSTVYT HAIFKKFQVE VLGVVGCHPK KGSEDGTIVT YRVQDCEKNE YFMVTWNELK 360 SEVSCLCRLF ECKGFLCRHA MIVLQICGLS SIPPHYILKR WTKDAKSKQL ISEGAERLQT 420 RVQRYNDLCK RAIELSEEGS LSDENYNIVF RALVDGLKNC VNMNNANNSV LECSSHAQGV 480 REAEETNQGS FATKSSKKKN AIRKRKVQSE PDVLLVDAQE SLQQMENLTS DGITLNGFYA 540 AQQNVQGLVQ LNLMEPPHDG YYVNQQSLQG LVSCAGFMTG QLNSIAPSHD GFFGTQQSMH 600 GLGQLDFRPP TSFGYGLQDE SHLRSTQLHS NAPGHP

Sequence ? help Back to Top

Protein Sequence Length: 636 aa Download sequence Send to blast

MAVVGLEGES SFEPRNGIEF ESHEAAYAFY QEYAKSMGFT TSIKNSRRSK KSKEFIDAKF  60
ACSRYGFTPE SDSGSSRRSS VKKTDCKASM HVKRRADAKW IIHEFIKEHN HELLPALAYH  120
FRIGRNVKLA EKNNIDILHA VSERTRKTYV EMSRQSAGCR NGGFLSDLDN QFDKGRFLPL  180
DEGDAQKCIL KSWTDEEFDM RWWKMVTRFE LQDDEWVQSL YEDRKKWVPT YMGDTFLAGM  240
STTQRSESMN SFFDKYIHKK ITLKEFVKQY GNILQNRYEE EAIADFDTWH KQPALKSPSP  300
WEKQMSTVYT HAIFKKFQVE VLGVVGCHPK KGSEDGTIVT YRVQDCEKNE YFMVTWNELK  360
SEVSCLCRLF ECKGFLCRHA MIVLQICGLS SIPPHYILKR WTKDAKSKQL ISEGAERLQT  420
RVQRYNDLCK RAIELSEEGS LSDENYNIVF RALVDGLKNC VNMNNANNSV LECSSHAQGV  480
REAEETNQGS FATKSSKKKN AIRKRKVQSE PDVLLVDAQE SLQQMENLTS DGITLNGFYA  540
AQQNVQGLVQ LNLMEPPHDG YYVNQQSLQG LVSCAGFMTG QLNSIAPSHD GFFGTQQSMH  600
GLGQLDFRPP TSFGYGLQDE SHLRSTQLHS NAPGHP

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. Positive regulator of chlorophyll biosynthesis via the activation of HEMB1 gene expression. {ECO:0000269\|PubMed:11889039, ECO:0000269\|PubMed:12753585, ECO:0000269\|PubMed:18033885, ECO:0000269\|PubMed:22634759}.

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00434	DAP	Transfer from AT4G15090	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. {ECO:0000269\|PubMed:18033885}.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_024037440.1	0.0	protein FAR-RED IMPAIRED RESPONSE 1 isoform X1
Refseq	XP_024955390.1	0.0	protein FAR-RED IMPAIRED RESPONSE 1 isoform X1
Swissprot	Q9SWG3	0.0	FAR1_ARATH; Protein FAR-RED IMPAIRED RESPONSE 1
TrEMBL	A0A2P5RM37	0.0	A0A2P5RM37_GOSBA; Uncharacterized protein
STRING	VIT_03s0017g01810.t01	0.0	(Vitis vinifera)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM118	26	253

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT4G15090.1	0.0	FAR1 family protein

Publications ? help Back to Top
Domergue F, et al. Three Arabidopsis fatty acyl-coenzyme A reductases, FAR1, FAR4, and FAR5, generate primary fatty alcohols associated with suberin deposition. Plant Physiol., 2010. 153(4): p. 1539-54 [PMID:20571114] Heyndrickx KS,Vandepoele K Systematic identification of functional plant modules through the integration of complementary data sources. Plant Physiol., 2012. 159(3): p. 884-901 [PMID:22589469] 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] 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]