(data stored in SCRATCH zone)

SWISSPROT: PP339_ARATH

ID   PP339_ARATH             Reviewed;         514 AA.
AC   Q9SZ20;
DT   10-FEB-2009, integrated into UniProtKB/Swiss-Prot.
DT   10-FEB-2009, sequence version 2.
DT   11-DEC-2019, entry version 106.
DE   RecName: Full=Pentatricopeptide repeat-containing protein At4g26800;
GN   OrderedLocusNames=At4g26800; ORFNames=F10M23.140;
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=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   [2]
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   [3]
RP   NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORMS 1 AND 2).
RC   STRAIN=cv. Columbia;
RX   PubMed=14993207; DOI=10.1101/gr.1515604;
RA   Castelli V., Aury J.-M., Jaillon O., Wincker P., Clepet C., Menard M.,
RA   Cruaud C., Quetier F., Scarpelli C., Schaechter V., Temple G., Caboche M.,
RA   Weissenbach J., Salanoubat M.;
RT   "Whole genome sequence comparisons and 'full-length' cDNA sequences: a
RT   combined approach to evaluate and improve Arabidopsis genome annotation.";
RL   Genome Res. 14:406-413(2004).
RN   [4]
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).
CC   -!- ALTERNATIVE PRODUCTS:
CC       Event=Alternative splicing; Named isoforms=2;
CC       Name=1;
CC         IsoId=Q9SZ20-1; Sequence=Displayed;
CC       Name=2;
CC         IsoId=Q9SZ20-2; Sequence=VSP_036305, VSP_036306;
CC   -!- MISCELLANEOUS: [Isoform 1]: May be due to an intron retention.
CC   -!- SIMILARITY: Belongs to the PPR family. P subfamily. {ECO:0000305}.
CC   -!- SEQUENCE CAUTION:
CC       Sequence=BX838540; Type=Miscellaneous discrepancy; Note=Sequencing errors.; Evidence={ECO:0000305};
CC       Sequence=CAB36526.1; Type=Erroneous initiation; Evidence={ECO:0000305};
CC       Sequence=CAB79535.1; Type=Erroneous initiation; Evidence={ECO:0000305};
CC   -!- WEB RESOURCE: Name=Pentatricopeptide repeat proteins;
CC       URL="https://ppr.plantenergy.uwa.edu.au";
DR   EMBL; AL035440; CAB36526.1; ALT_INIT; Genomic_DNA.
DR   EMBL; AL161565; CAB79535.1; ALT_INIT; Genomic_DNA.
DR   EMBL; CP002687; AEE85254.1; -; Genomic_DNA.
DR   EMBL; CP002687; ANM67332.1; -; Genomic_DNA.
DR   EMBL; BX838540; -; NOT_ANNOTATED_CDS; mRNA.
DR   EMBL; BX828174; -; NOT_ANNOTATED_CDS; mRNA.
DR   PIR; T04803; T04803.
DR   RefSeq; NP_001329165.1; NM_001341831.1.
DR   RefSeq; NP_001329166.1; NM_001341830.1. [Q9SZ20-1]
DR   RefSeq; NP_194410.2; NM_118814.3. [Q9SZ20-2]
DR   SMR; Q9SZ20; -.
DR   PaxDb; Q9SZ20; -.
DR   PRIDE; Q9SZ20; -.
DR   EnsemblPlants; AT4G26800.1; AT4G26800.1; AT4G26800. [Q9SZ20-2]
DR   EnsemblPlants; AT4G26800.2; AT4G26800.2; AT4G26800. [Q9SZ20-1]
DR   GeneID; 828787; -.
DR   Gramene; AT4G26800.1; AT4G26800.1; AT4G26800. [Q9SZ20-2]
DR   Gramene; AT4G26800.2; AT4G26800.2; AT4G26800. [Q9SZ20-1]
DR   KEGG; ath:AT4G26800; -.
DR   Araport; AT4G26800; -.
DR   TAIR; locus:2116292; AT4G26800.
DR   eggNOG; KOG4197; Eukaryota.
DR   eggNOG; ENOG410Z7Z7; LUCA.
DR   HOGENOM; HOG000015176; -.
DR   InParanoid; Q9SZ20; -.
DR   OrthoDB; 1344243at2759; -.
DR   PhylomeDB; Q9SZ20; -.
DR   PRO; PR:Q9SZ20; -.
DR   Proteomes; UP000006548; Chromosome 4.
DR   ExpressionAtlas; Q9SZ20; baseline and differential.
DR   Genevisible; Q9SZ20; AT.
DR   Gene3D; 1.25.40.10; -; 4.
DR   InterPro; IPR002885; Pentatricopeptide_repeat.
DR   InterPro; IPR011990; TPR-like_helical_dom_sf.
DR   Pfam; PF01535; PPR; 1.
DR   Pfam; PF12854; PPR_1; 1.
DR   Pfam; PF13041; PPR_2; 4.
DR   TIGRFAMs; TIGR00756; PPR; 10.
DR   PROSITE; PS51375; PPR; 12.
PE   2: Evidence at transcript level;
DR   PRODOM; Q9SZ20.
DR   SWISS-2DPAGE; Q9SZ20.
KW   Alternative splicing; Reference proteome; Repeat.
FT   CHAIN           1..514
FT                   /note="Pentatricopeptide repeat-containing protein
FT                   At4g26800"
FT                   /id="PRO_0000363456"
FT   REPEAT          122..156
FT                   /note="PPR 1"
FT   REPEAT          157..191
FT                   /note="PPR 2"
FT   REPEAT          192..226
FT                   /note="PPR 3"
FT   REPEAT          227..261
FT                   /note="PPR 4"
FT   REPEAT          262..296
FT                   /note="PPR 5"
FT   REPEAT          297..331
FT                   /note="PPR 6"
FT   REPEAT          332..366
FT                   /note="PPR 7"
FT   REPEAT          367..401
FT                   /note="PPR 8"
FT   REPEAT          402..436
FT                   /note="PPR 9"
FT   REPEAT          437..471
FT                   /note="PPR 10"
FT   REPEAT          472..510
FT                   /note="PPR 11"
FT   VAR_SEQ         1..145
FT                   /note="Missing (in isoform 2)"
FT                   /evidence="ECO:0000303|PubMed:14993207"
FT                   /id="VSP_036305"
FT   VAR_SEQ         146..147
FT                   /note="LG -> ML (in isoform 2)"
FT                   /evidence="ECO:0000303|PubMed:14993207"
FT                   /id="VSP_036306"
SQ   SEQUENCE   514 AA;  57841 MW;  F4892DCA91ECE25A CRC64;
     MRWSIATAIA STAKGFLHLH HHFLKNSNPG IVLSPSLRFR FWVRAFSGTT IDYREVLRSG
     LHNIKFDDAF HLFVLMAYSY PLPSIVEFNK VLTAIAKMQM YDVVINLWKR IENAEGIEIS
     PDLYTCNILV NCFCRCFQPS SALSYLGKMM KLGIEPDIVT ASSLVNGFCL SNSIKDAVYV
     AGQMEKMGIK RDVVVDTILI DTLCKNRLVV PALEVLKRMK DRGISPNVVT YSSLITGLCK
     SGRLADAERR LHEMDSKKIN PNVITFSALI DAYAKRGKLS KVDSVYKMMI QMSIDPNVFT
     YSSLIYGLCM HNRVDEAIKM LDLMISKGCT PNVVTYSTLA NGFFKSSRVD DGIKLLDDMP
     QRGVAANTVS CNTLIKGYFQ AGKIDLALGV FGYMTSNGLI PNIRSYNIVL AGLFANGEVE
     KALSRFEHMQ KTRNDLDIIT YTIMIHGMCK ACMVKEAYDL FYKLKFKRVE PDFKAYTIMI
     AELNRAGMRT EADALNRFYQ KHVRQNESAP AEVS
//

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