PP312_ARATH
ID PP312_ARATH Reviewed; 684 AA.
AC Q0WSH6; O23340; Q6NQI9;
DT 10-FEB-2009, integrated into UniProtKB/Swiss-Prot.
DT 05-SEP-2006, sequence version 1.
DT 03-AUG-2022, entry version 105.
DE RecName: Full=Pentatricopeptide repeat-containing protein At4g14850;
DE AltName: Full=Protein LOVASTATIN INSENSITIVE 1;
GN Name=LOI1; Synonyms=PCMP-H4; OrderedLocusNames=At4g14850;
GN ORFNames=dl3465w, FCAALL.335;
OS Arabidopsis thaliana (Mouse-ear cress).
OC Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;
OC Spermatophyta; Magnoliopsida; eudicotyledons; Gunneridae; Pentapetalae;
OC rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis.
OX NCBI_TaxID=3702;
RN [1]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=cv. Columbia;
RX PubMed=9461215; DOI=10.1038/35140;
RA Bevan M., Bancroft I., Bent E., Love K., Goodman H.M., Dean C.,
RA Bergkamp R., Dirkse W., van Staveren M., Stiekema W., Drost L., Ridley P.,
RA Hudson S.-A., Patel K., Murphy G., Piffanelli P., Wedler H., Wedler E.,
RA Wambutt R., Weitzenegger T., Pohl T., Terryn N., Gielen J., Villarroel R.,
RA De Clercq R., van Montagu M., Lecharny A., Aubourg S., Gy I., Kreis M.,
RA Lao N., Kavanagh T., Hempel S., Kotter P., Entian K.-D., Rieger M.,
RA Schaefer M., Funk B., Mueller-Auer S., Silvey M., James R., Monfort A.,
RA Pons A., Puigdomenech P., Douka A., Voukelatou E., Milioni D.,
RA Hatzopoulos P., Piravandi E., Obermaier B., Hilbert H., Duesterhoeft A.,
RA Moores T., Jones J.D.G., Eneva T., Palme K., Benes V., Rechmann S.,
RA Ansorge W., Cooke R., Berger C., Delseny M., Voet M., Volckaert G.,
RA Mewes H.-W., Klosterman S., Schueller C., Chalwatzis N.;
RT "Analysis of 1.9 Mb of contiguous sequence from chromosome 4 of Arabidopsis
RT thaliana.";
RL Nature 391:485-488(1998).
RN [2]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=cv. Columbia;
RX PubMed=10617198; DOI=10.1038/47134;
RA Mayer K.F.X., Schueller C., Wambutt R., Murphy G., Volckaert G., Pohl T.,
RA Duesterhoeft A., Stiekema W., Entian K.-D., Terryn N., Harris B.,
RA Ansorge W., Brandt P., Grivell L.A., Rieger M., Weichselgartner M.,
RA de Simone V., Obermaier B., Mache R., Mueller M., Kreis M., Delseny M.,
RA Puigdomenech P., Watson M., Schmidtheini T., Reichert B., Portetelle D.,
RA Perez-Alonso M., Boutry M., Bancroft I., Vos P., Hoheisel J.,
RA Zimmermann W., Wedler H., Ridley P., Langham S.-A., McCullagh B.,
RA Bilham L., Robben J., van der Schueren J., Grymonprez B., Chuang Y.-J.,
RA Vandenbussche F., Braeken M., Weltjens I., Voet M., Bastiaens I., Aert R.,
RA Defoor E., Weitzenegger T., Bothe G., Ramsperger U., Hilbert H., Braun M.,
RA Holzer E., Brandt A., Peters S., van Staveren M., Dirkse W., Mooijman P.,
RA Klein Lankhorst R., Rose M., Hauf J., Koetter P., Berneiser S., Hempel S.,
RA Feldpausch M., Lamberth S., Van den Daele H., De Keyser A., Buysshaert C.,
RA Gielen J., Villarroel R., De Clercq R., van Montagu M., Rogers J.,
RA Cronin A., Quail M.A., Bray-Allen S., Clark L., Doggett J., Hall S.,
RA Kay M., Lennard N., McLay K., Mayes R., Pettett A., Rajandream M.A.,
RA Lyne M., Benes V., Rechmann S., Borkova D., Bloecker H., Scharfe M.,
RA Grimm M., Loehnert T.-H., Dose S., de Haan M., Maarse A.C., Schaefer M.,
RA Mueller-Auer S., Gabel C., Fuchs M., Fartmann B., Granderath K., Dauner D.,
RA Herzl A., Neumann S., Argiriou A., Vitale D., Liguori R., Piravandi E.,
RA Massenet O., Quigley F., Clabauld G., Muendlein A., Felber R., Schnabl S.,
RA Hiller R., Schmidt W., Lecharny A., Aubourg S., Chefdor F., Cooke R.,
RA Berger C., Monfort A., Casacuberta E., Gibbons T., Weber N., Vandenbol M.,
RA Bargues M., Terol J., Torres A., Perez-Perez A., Purnelle B., Bent E.,
RA Johnson S., Tacon D., Jesse T., Heijnen L., Schwarz S., Scholler P.,
RA Heber S., Francs P., Bielke C., Frishman D., Haase D., Lemcke K.,
RA Mewes H.-W., Stocker S., Zaccaria P., Bevan M., Wilson R.K.,
RA de la Bastide M., Habermann K., Parnell L., Dedhia N., Gnoj L., Schutz K.,
RA Huang E., Spiegel L., Sekhon M., Murray J., Sheet P., Cordes M.,
RA Abu-Threideh J., Stoneking T., Kalicki J., Graves T., Harmon G.,
RA Edwards J., Latreille P., Courtney L., Cloud J., Abbott A., Scott K.,
RA Johnson D., Minx P., Bentley D., Fulton B., Miller N., Greco T., Kemp K.,
RA Kramer J., Fulton L., Mardis E., Dante M., Pepin K., Hillier L.W.,
RA Nelson J., Spieth J., Ryan E., Andrews S., Geisel C., Layman D., Du H.,
RA Ali J., Berghoff A., Jones K., Drone K., Cotton M., Joshu C., Antonoiu B.,
RA Zidanic M., Strong C., Sun H., Lamar B., Yordan C., Ma P., Zhong J.,
RA Preston R., Vil D., Shekher M., Matero A., Shah R., Swaby I.K.,
RA O'Shaughnessy A., Rodriguez M., Hoffman J., Till S., Granat S., Shohdy N.,
RA Hasegawa A., Hameed A., Lodhi M., Johnson A., Chen E., Marra M.A.,
RA Martienssen R., McCombie W.R.;
RT "Sequence and analysis of chromosome 4 of the plant Arabidopsis thaliana.";
RL Nature 402:769-777(1999).
RN [3]
RP GENOME REANNOTATION.
RC STRAIN=cv. Columbia;
RX PubMed=27862469; DOI=10.1111/tpj.13415;
RA Cheng C.Y., Krishnakumar V., Chan A.P., Thibaud-Nissen F., Schobel S.,
RA Town C.D.;
RT "Araport11: a complete reannotation of the Arabidopsis thaliana reference
RT genome.";
RL Plant J. 89:789-804(2017).
RN [4]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
RC STRAIN=cv. Columbia;
RA Totoki Y., Seki M., Ishida J., Nakajima M., Enju A., Kamiya A.,
RA Narusaka M., Shin-i T., Nakagawa M., Sakamoto N., Oishi K., Kohara Y.,
RA Kobayashi M., Toyoda A., Sakaki Y., Sakurai T., Iida K., Akiyama K.,
RA Satou M., Toyoda T., Konagaya A., Carninci P., Kawai J., Hayashizaki Y.,
RA Shinozaki K.;
RT "Large-scale analysis of RIKEN Arabidopsis full-length (RAFL) cDNAs.";
RL Submitted (JUL-2006) to the EMBL/GenBank/DDBJ databases.
RN [5]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] OF 51-684.
RC STRAIN=cv. Columbia;
RX PubMed=14593172; DOI=10.1126/science.1088305;
RA Yamada K., Lim J., Dale J.M., Chen H., Shinn P., Palm C.J., Southwick A.M.,
RA Wu H.C., Kim C.J., Nguyen M., Pham P.K., Cheuk R.F., Karlin-Newmann G.,
RA Liu S.X., Lam B., Sakano H., Wu T., Yu G., Miranda M., Quach H.L.,
RA Tripp M., Chang C.H., Lee J.M., Toriumi M.J., Chan M.M., Tang C.C.,
RA Onodera C.S., Deng J.M., Akiyama K., Ansari Y., Arakawa T., Banh J.,
RA Banno F., Bowser L., Brooks S.Y., Carninci P., Chao Q., Choy N., Enju A.,
RA Goldsmith A.D., Gurjal M., Hansen N.F., Hayashizaki Y., Johnson-Hopson C.,
RA Hsuan V.W., Iida K., Karnes M., Khan S., Koesema E., Ishida J., Jiang P.X.,
RA Jones T., Kawai J., Kamiya A., Meyers C., Nakajima M., Narusaka M.,
RA Seki M., Sakurai T., Satou M., Tamse R., Vaysberg M., Wallender E.K.,
RA Wong C., Yamamura Y., Yuan S., Shinozaki K., Davis R.W., Theologis A.,
RA Ecker J.R.;
RT "Empirical analysis of transcriptional activity in the Arabidopsis
RT genome.";
RL Science 302:842-846(2003).
RN [6]
RP GENE FAMILY.
RX PubMed=10809006; DOI=10.1023/a:1006352315928;
RA Aubourg S., Boudet N., Kreis M., Lecharny A.;
RT "In Arabidopsis thaliana, 1% of the genome codes for a novel protein family
RT unique to plants.";
RL Plant Mol. Biol. 42:603-613(2000).
RN [7]
RP GENE FAMILY.
RX PubMed=15269332; DOI=10.1105/tpc.104.022236;
RA Lurin C., Andres C., Aubourg S., Bellaoui M., Bitton F., Bruyere C.,
RA Caboche M., Debast C., Gualberto J., Hoffmann B., Lecharny A., Le Ret M.,
RA Martin-Magniette M.-L., Mireau H., Peeters N., Renou J.-P., Szurek B.,
RA Taconnat L., Small I.;
RT "Genome-wide analysis of Arabidopsis pentatricopeptide repeat proteins
RT reveals their essential role in organelle biogenesis.";
RL Plant Cell 16:2089-2103(2004).
RN [8]
RP FUNCTION, AND RNA-BINDING.
RX PubMed=17213228; DOI=10.1093/pcp/pcm005;
RA Kobayashi K., Suzuki M., Tang J., Nagata N., Ohyama K., Seki H., Kiuchi R.,
RA Kaneko Y., Nakazawa M., Matsui M., Matsumoto S., Yoshida S., Muranaka T.;
RT "LOVASTATIN INSENSITIVE 1, a novel pentatricopeptide repeat protein, is a
RT potential regulatory factor of isoprenoid biosynthesis in Arabidopsis.";
RL Plant Cell Physiol. 48:322-331(2007).
CC -!- FUNCTION: Acts as a regulatory factor of isoprenoid biosynthesis. Could
CC bind RNA. {ECO:0000269|PubMed:17213228}.
CC -!- SIMILARITY: Belongs to the PPR family. PCMP-H subfamily. {ECO:0000305}.
CC -!- SEQUENCE CAUTION:
CC Sequence=CAB10264.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305};
CC Sequence=CAB78527.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305};
CC -!- WEB RESOURCE: Name=Pentatricopeptide repeat proteins;
CC URL="https://ppr.plantenergy.uwa.edu.au";
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DR EMBL; Z97337; CAB10264.1; ALT_SEQ; Genomic_DNA.
DR EMBL; AL161540; CAB78527.1; ALT_SEQ; Genomic_DNA.
DR EMBL; CP002687; AEE83509.1; -; Genomic_DNA.
DR EMBL; AK227954; BAE99922.1; -; mRNA.
DR EMBL; BT010464; AAQ65087.1; -; mRNA.
DR PIR; F71411; F71411.
DR RefSeq; NP_193221.3; NM_117571.5.
DR AlphaFoldDB; Q0WSH6; -.
DR SMR; Q0WSH6; -.
DR STRING; 3702.AT4G14850.1; -.
DR PaxDb; Q0WSH6; -.
DR PRIDE; Q0WSH6; -.
DR ProteomicsDB; 249221; -.
DR EnsemblPlants; AT4G14850.1; AT4G14850.1; AT4G14850.
DR GeneID; 827142; -.
DR Gramene; AT4G14850.1; AT4G14850.1; AT4G14850.
DR KEGG; ath:AT4G14850; -.
DR Araport; AT4G14850; -.
DR TAIR; locus:2130389; AT4G14850.
DR eggNOG; KOG4197; Eukaryota.
DR HOGENOM; CLU_002706_37_2_1; -.
DR InParanoid; Q0WSH6; -.
DR OMA; DFTFPCV; -.
DR OrthoDB; 1344243at2759; -.
DR PhylomeDB; Q0WSH6; -.
DR PRO; PR:Q0WSH6; -.
DR Proteomes; UP000006548; Chromosome 4.
DR ExpressionAtlas; Q0WSH6; baseline and differential.
DR Genevisible; Q0WSH6; AT.
DR GO; GO:0043231; C:intracellular membrane-bounded organelle; IBA:GO_Central.
DR GO; GO:0005739; C:mitochondrion; IDA:TAIR.
DR GO; GO:0003729; F:mRNA binding; IDA:TAIR.
DR GO; GO:0000166; F:nucleotide binding; IEA:UniProtKB-KW.
DR GO; GO:0034046; F:poly(G) binding; IDA:TAIR.
DR GO; GO:0003723; F:RNA binding; IBA:GO_Central.
DR GO; GO:0008270; F:zinc ion binding; IEA:InterPro.
DR GO; GO:0019288; P:isopentenyl diphosphate biosynthetic process, methylerythritol 4-phosphate pathway; IMP:TAIR.
DR GO; GO:0019287; P:isopentenyl diphosphate biosynthetic process, mevalonate pathway; IMP:TAIR.
DR GO; GO:0050790; P:regulation of catalytic activity; IMP:TAIR.
DR GO; GO:0009451; P:RNA modification; IBA:GO_Central.
DR GO; GO:0048364; P:root development; IMP:TAIR.
DR GO; GO:0016125; P:sterol metabolic process; IMP:TAIR.
DR Gene3D; 1.25.40.10; -; 5.
DR InterPro; IPR032867; DYW_dom.
DR InterPro; IPR002885; Pentatricopeptide_repeat.
DR InterPro; IPR045215; PPR_prot_plant.
DR InterPro; IPR011990; TPR-like_helical_dom_sf.
DR PANTHER; PTHR24015; PTHR24015; 1.
DR Pfam; PF14432; DYW_deaminase; 1.
DR Pfam; PF01535; PPR; 3.
DR Pfam; PF13041; PPR_2; 2.
DR TIGRFAMs; TIGR00756; PPR; 3.
DR PROSITE; PS51375; PPR; 10.
PE 1: Evidence at protein level;
KW Nucleotide-binding; Reference proteome; Repeat; RNA-binding.
FT CHAIN 1..684
FT /note="Pentatricopeptide repeat-containing protein
FT At4g14850"
FT /id="PRO_0000363430"
FT REPEAT 5..39
FT /note="PPR 1"
FT REPEAT 41..71
FT /note="PPR 2"
FT REPEAT 72..106
FT /note="PPR 3"
FT REPEAT 107..141
FT /note="PPR 4"
FT REPEAT 142..172
FT /note="PPR 5"
FT REPEAT 173..207
FT /note="PPR 6"
FT REPEAT 208..242
FT /note="PPR 7"
FT REPEAT 243..277
FT /note="PPR 8"
FT REPEAT 278..308
FT /note="PPR 9"
FT REPEAT 309..343
FT /note="PPR 10"
FT REPEAT 344..374
FT /note="PPR 11"
FT REPEAT 375..409
FT /note="PPR 12"
FT REPEAT 412..442
FT /note="PPR 13"
FT REPEAT 448..478
FT /note="PPR 14"
FT REGION 483..558
FT /note="Type E motif; degenerate"
FT REGION 559..589
FT /note="Type E(+) motif; degenerate"
FT REGION 590..684
FT /note="Type DYW motif"
SQ SEQUENCE 684 AA; 75889 MW; 4EF16D2F2862743B CRC64;
MSLLSADALG LLLKNAISAS SMRLGRVVHA RIVKTLDSPP PPFLANYLIN MYSKLDHPES
ARLVLRLTPA RNVVSWTSLI SGLAQNGHFS TALVEFFEMR REGVVPNDFT FPCAFKAVAS
LRLPVTGKQI HALAVKCGRI LDVFVGCSAF DMYCKTRLRD DARKLFDEIP ERNLETWNAF
ISNSVTDGRP REAIEAFIEF RRIDGHPNSI TFCAFLNACS DWLHLNLGMQ LHGLVLRSGF
DTDVSVCNGL IDFYGKCKQI RSSEIIFTEM GTKNAVSWCS LVAAYVQNHE DEKASVLYLR
SRKDIVETSD FMISSVLSAC AGMAGLELGR SIHAHAVKAC VERTIFVGSA LVDMYGKCGC
IEDSEQAFDE MPEKNLVTRN SLIGGYAHQG QVDMALALFE EMAPRGCGPT PNYMTFVSLL
SACSRAGAVE NGMKIFDSMR STYGIEPGAE HYSCIVDMLG RAGMVERAYE FIKKMPIQPT
ISVWGALQNA CRMHGKPQLG LLAAENLFKL DPKDSGNHVL LSNTFAAAGR WAEANTVREE
LKGVGIKKGA GYSWITVKNQ VHAFQAKDRS HILNKEIQTT LAKLRNEMEA AGYKPDLKLS
LYDLEEEEKA AEVSHHSEKL ALAFGLLSLP LSVPIRITKN LRICGDCHSF FKFVSGSVKR
EIIVRDNNRF HRFKDGICSC KDYW
