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

Achn232491

Organism

Actinidia chinensis

Taxonomic ID

3625

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; Ericales; Actinidiaceae; Actinidia

Family

FAR1

Protein Properties

Length: 667aa MW: 75739.2 Da PI: 7.3705

Description

FAR1 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Achn232491	genome	IKGC	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	FAR1	33.3	1.6e-10	476	529	37	90
FAR1 37 kegkreeekkktekerrtraetrtgCkaklkvkkek.dgkwevtkleleHnHela 90 keg+re++k++ +++ +etrt+C+a + v+ ++ +w+v+k+e +HnH+l+ Achn232491 476 KEGEREKDKQH-PLVKQRPEETRTDCNAFMYVSFKReLTNWVVKKFEDNHNHPLN 529 78888888887.777788899**********998799************95 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF02401	2.9E-53	111	356	IPR003451	4-hydroxy-3-methylbut-2-enyl diphosphate reductase
TIGRFAMs	TIGR00216	1.4E-58	111	355	IPR003451	4-hydroxy-3-methylbut-2-enyl diphosphate reductase
CDD	cd13944	7.38E-90	111	475	IPR003451	4-hydroxy-3-methylbut-2-enyl diphosphate reductase
Pfam	PF02401	1.0E-18	385	476	IPR003451	4-hydroxy-3-methylbut-2-enyl diphosphate reductase
Pfam	PF03101	1.7E-7	476	529	IPR004330	FAR1 DNA binding domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0019288	Biological Process	isopentenyl diphosphate biosynthetic process, methylerythritol 4-phosphate pathway
GO:0050992	Biological Process	dimethylallyl diphosphate biosynthetic process
GO:0046872	Molecular Function	metal ion binding
GO:0051745	Molecular Function	4-hydroxy-3-methylbut-2-en-1-yl diphosphate reductase activity

Sequence ? help Back to Top
Protein Sequence Length: 667 aa Download sequence Send to blast
MISLQFCGFS TRTGRTDLSV PERRAFPFRK PLSVRCSAGE SLSPSSASVE ADPDFDAKVF 60 RKNLTRSKNY NRRGFGHKEE TLELMNREYT SDIIKTLKEN GNEYTWGNVT VKLAEAYGFC 120 WGVERAVQIA YEARKQFPQE KIWITNDIIH NPTVNKRLEE MEVQNIPIKD GKKQFDVVAK 180 DDVVVLPAFG AAVDEMLVLS DKNVQIVDTT CPWVSKVWTT VEKHKKGEYT SIIHGKYSHE 240 ETIATASFAG KYIIVKNMAE AQYVCDYILG GELDGSSSTK EAFLEKFKFA VSNGFDPESD 300 LVKVGIANQT TMLKGETEEI GKLVERTMMR RYGVENVNDH FKSFNTICDA TQKCKHKKNE 360 GKLAPSIFDI LAFMKFLLIN PPPFQERQDA MYKLVEQPLD LMLVVGGWNS SNTSHLQEIA 420 EDRGIPSYWI DSEQRIGPGN RISYKLMHGE LVEKENFIPE GPITIGVTSG ASTPDKEGER 480 EKDKQHPLVK QRPEETRTDC NAFMYVSFKR ELTNWVVKKF EDNHNHPLNL HQFIHRMPSQ 540 RKLCAVQDMN VDQADDTGMS LNASDDLVSA LAGRREFIGV TQEDQKRYLS EKIQGTCNAA 600 KQGLCRAISR SKPLKIHVFT MQYNWILMRR SLITDYGHFG DVLSFDTTFL PTKSTISCFY 660 QTTISK*

Sequence ? help Back to Top

Protein Sequence Length: 667 aa Download sequence Send to blast

MISLQFCGFS TRTGRTDLSV PERRAFPFRK PLSVRCSAGE SLSPSSASVE ADPDFDAKVF  60
RKNLTRSKNY NRRGFGHKEE TLELMNREYT SDIIKTLKEN GNEYTWGNVT VKLAEAYGFC  120
WGVERAVQIA YEARKQFPQE KIWITNDIIH NPTVNKRLEE MEVQNIPIKD GKKQFDVVAK  180
DDVVVLPAFG AAVDEMLVLS DKNVQIVDTT CPWVSKVWTT VEKHKKGEYT SIIHGKYSHE  240
ETIATASFAG KYIIVKNMAE AQYVCDYILG GELDGSSSTK EAFLEKFKFA VSNGFDPESD  300
LVKVGIANQT TMLKGETEEI GKLVERTMMR RYGVENVNDH FKSFNTICDA TQKCKHKKNE  360
GKLAPSIFDI LAFMKFLLIN PPPFQERQDA MYKLVEQPLD LMLVVGGWNS SNTSHLQEIA  420
EDRGIPSYWI DSEQRIGPGN RISYKLMHGE LVEKENFIPE GPITIGVTSG ASTPDKEGER  480
EKDKQHPLVK QRPEETRTDC NAFMYVSFKR ELTNWVVKKF EDNHNHPLNL HQFIHRMPSQ  540
RKLCAVQDMN VDQADDTGMS LNASDDLVSA LAGRREFIGV TQEDQKRYLS EKIQGTCNAA  600
KQGLCRAISR SKPLKIHVFT MQYNWILMRR SLITDYGHFG DVLSFDTTFL PTKSTISCFY  660
QTTISK*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
3dnf_A	2e-17	109	475	2	268	4-hydroxy-3-methylbut-2-enyl diphosphate reductase
3dnf_B	2e-17	109	475	2	268	4-hydroxy-3-methylbut-2-enyl diphosphate reductase
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Functional Description ? help Back to Top
Source	Description
UniProt	Enzyme of the plastid non-mevalonate pathway for isoprenoid biosynthesis that converts 1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate into isopentenyl diphosphate (IPP) and dimethylallyl diphosphate (DMAPP). Is essential for chloroplast development. {ECO:0000269\|PubMed:15659625, ECO:0000269\|PubMed:15863698}.

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Circadian-regulated with a peak in the late period of dark phase and early period of the light phase. {ECO:0000269\|PubMed:15863698}.

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	-

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	KF319039	0.0	KF319039.1 Actinidia deliciosa 1-hydroxy-2-methyl-butenyl 4-diphosphate reductase (HDR1) mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_028107060.1	0.0	4-hydroxy-3-methylbut-2-enyl diphosphate reductase, chloroplastic
Swissprot	Q94B35	0.0	ISPH_ARATH; 4-hydroxy-3-methylbut-2-enyl diphosphate reductase, chloroplastic
TrEMBL	A0A2R6RHB0	0.0	A0A2R6RHB0_ACTCH; 4-hydroxy-3-methylbut-2-enyl diphosphate reductase
STRING	PGSC0003DMT400064783	0.0	(Solanum tuberosum)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT4G38180.1	8e-06	FAR1-related sequence 5

Publications ? help Back to Top
Bauer J,Hiltbrunner A,Kessler F Molecular biology of chloroplast biogenesis: gene expression, protein import and intraorganellar sorting. Cell. Mol. Life Sci., 2001. 58(3): p. 420-33 [PMID:11315189] Maréchal E Chloroplast biogenesis and function are first in the list of essential Arabidopsis genes. Trends Plant Sci., 2002. 7(3): p. 99-100 [PMID:11906829] Gutiérrez-Nava Mde L,Gillmor CS,Jiménez LF,Guevara-García A,León P CHLOROPLAST BIOGENESIS genes act cell and noncell autonomously in early chloroplast development. Plant Physiol., 2004. 135(1): p. 471-82 [PMID:15133149] Guevara-García A, et al. Characterization of the Arabidopsis clb6 mutant illustrates the importance of posttranscriptional regulation of the methyl-D-erythritol 4-phosphate pathway. Plant Cell, 2005. 17(2): p. 628-43 [PMID:15659625] Hsieh MH,Goodman HM The Arabidopsis IspH homolog is involved in the plastid nonmevalonate pathway of isoprenoid biosynthesis. Plant Physiol., 2005. 138(2): p. 641-53 [PMID:15863698] Hsieh MH,Chang CY,Hsu SJ,Chen JJ Chloroplast localization of methylerythritol 4-phosphate pathway enzymes and regulation of mitochondrial genes in ispD and ispE albino mutants in Arabidopsis. Plant Mol. Biol., 2008. 66(6): p. 663-73 [PMID:18236010] Rutschow H,Ytterberg AJ,Friso G,Nilsson R,van Wijk KJ Quantitative proteomics of a chloroplast SRP54 sorting mutant and its genetic interactions with CLPC1 in Arabidopsis. Plant Physiol., 2008. 148(1): p. 156-75 [PMID:18633119] Phillips MA,León P,Boronat A,Rodríguez-Concepción M The plastidial MEP pathway: unified nomenclature and resources. Trends Plant Sci., 2008. 13(12): p. 619-23 [PMID:18948055] Huang JZ,Cheng TC,Wen PJ,Hsieh MH,Chen FC Molecular characterization of the Oncidium orchid HDR gene encoding 1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate reductase, the last step of the methylerythritol phosphate pathway. Plant Cell Rep., 2009. 28(10): p. 1475-86 [PMID:19636561] Bryant N,Lloyd J,Sweeney C,Myouga F,Meinke D Identification of nuclear genes encoding chloroplast-localized proteins required for embryo development in Arabidopsis. Plant Physiol., 2011. 155(4): p. 1678-89 [PMID:21139083] Kang MK,Nargis S,Kim SM,Kim SU Distinct expression patterns of two Ginkgo biloba 1-hydroxy-2-methyl-2-(E)-butenyl-4-diphosphate reductase/isopentenyl diphospahte synthase (HDR/IDS) promoters in Arabidopsis model. Plant Physiol. Biochem., 2013. 62: p. 47-53 [PMID:23178484] Hsieh WY,Sung TY,Wang HT,Hsieh MH Functional evidence for the critical amino-terminal conserved domain and key amino acids of Arabidopsis 4-HYDROXY-3-METHYLBUT-2-ENYL DIPHOSPHATE REDUCTASE. Plant Physiol., 2014. 166(1): p. 57-69 [PMID:25037211] Hsieh WY,Hsieh MH The amino-terminal conserved domain of 4-hydroxy-3-methylbut-2-enyl diphosphate reductase is critical for its function in oxygen-evolving photosynthetic organisms. Plant Signal Behav, 2015. 10(2): p. e988072 [PMID:25723575]