ID   RAP_ORYSJ               Reviewed;         640 AA.
AC   Q84MH1; Q0DR24;
DT   30-NOV-2016, integrated into UniProtKB/Swiss-Prot.
DT   01-JUN-2003, sequence version 1.
DT   25-MAY-2022, entry version 97.
DE   RecName: Full=RAP domain-containing protein, chloroplastic {ECO:0000305};
DE   AltName: Full=Protein ALBINO LEAF 1 {ECO:0000303|PubMed:27208287};
DE   Flags: Precursor;
GN   Name=AL1 {ECO:0000303|PubMed:27208287};
GN   OrderedLocusNames=Os03g0425000 {ECO:0000312|EMBL:BAS84772.1},
GN   LOC_Os03g31150 {ECO:0000312|EMBL:ABF96703.1};
GN   ORFNames=OsJ_11335 {ECO:0000312|EMBL:EAZ27387.1};
OS   Oryza sativa subsp. japonica (Rice).
OC   Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;
OC   Spermatophyta; Magnoliopsida; Liliopsida; Poales; Poaceae; BOP clade;
OC   Oryzoideae; Oryzeae; Oryzinae; Oryza; Oryza sativa.
OX   NCBI_TaxID=39947;
RN   [1]
RP   NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC   STRAIN=cv. Nipponbare;
RX   PubMed=16109971; DOI=10.1101/gr.3869505;
RG   The rice chromosome 3 sequencing consortium;
RA   Buell C.R., Yuan Q., Ouyang S., Liu J., Zhu W., Wang A., Maiti R., Haas B.,
RA   Wortman J., Pertea M., Jones K.M., Kim M., Overton L., Tsitrin T.,
RA   Fadrosh D., Bera J., Weaver B., Jin S., Johri S., Reardon M., Webb K.,
RA   Hill J., Moffat K., Tallon L., Van Aken S., Lewis M., Utterback T.,
RA   Feldblyum T., Zismann V., Iobst S., Hsiao J., de Vazeille A.R.,
RA   Salzberg S.L., White O., Fraser C.M., Yu Y., Kim H., Rambo T., Currie J.,
RA   Collura K., Kernodle-Thompson S., Wei F., Kudrna K., Ammiraju J.S.S.,
RA   Luo M., Goicoechea J.L., Wing R.A., Henry D., Oates R., Palmer M.,
RA   Pries G., Saski C., Simmons J., Soderlund C., Nelson W., de la Bastide M.,
RA   Spiegel L., Nascimento L., Huang E., Preston R., Zutavern T., Palmer L.,
RA   O'Shaughnessy A., Dike S., McCombie W.R., Minx P., Cordum H., Wilson R.,
RA   Jin W., Lee H.R., Jiang J., Jackson S.;
RT   "Sequence, annotation, and analysis of synteny between rice chromosome 3
RT   and diverged grass species.";
RL   Genome Res. 15:1284-1291(2005).
RN   [2]
RP   NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC   STRAIN=cv. Nipponbare;
RX   PubMed=16100779; DOI=10.1038/nature03895;
RG   International rice genome sequencing project (IRGSP);
RT   "The map-based sequence of the rice genome.";
RL   Nature 436:793-800(2005).
RN   [3]
RP   GENOME REANNOTATION.
RC   STRAIN=cv. Nipponbare;
RX   PubMed=18089549; DOI=10.1093/nar/gkm978;
RG   The rice annotation project (RAP);
RT   "The rice annotation project database (RAP-DB): 2008 update.";
RL   Nucleic Acids Res. 36:D1028-D1033(2008).
RN   [4]
RP   GENOME REANNOTATION.
RC   STRAIN=cv. Nipponbare;
RX   PubMed=24280374; DOI=10.1186/1939-8433-6-4;
RA   Kawahara Y., de la Bastide M., Hamilton J.P., Kanamori H., McCombie W.R.,
RA   Ouyang S., Schwartz D.C., Tanaka T., Wu J., Zhou S., Childs K.L.,
RA   Davidson R.M., Lin H., Quesada-Ocampo L., Vaillancourt B., Sakai H.,
RA   Lee S.S., Kim J., Numa H., Itoh T., Buell C.R., Matsumoto T.;
RT   "Improvement of the Oryza sativa Nipponbare reference genome using next
RT   generation sequence and optical map data.";
RL   Rice 6:4-4(2013).
RN   [5]
RP   NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC   STRAIN=cv. Nipponbare;
RX   PubMed=15685292; DOI=10.1371/journal.pbio.0030038;
RA   Yu J., Wang J., Lin W., Li S., Li H., Zhou J., Ni P., Dong W., Hu S.,
RA   Zeng C., Zhang J., Zhang Y., Li R., Xu Z., Li S., Li X., Zheng H., Cong L.,
RA   Lin L., Yin J., Geng J., Li G., Shi J., Liu J., Lv H., Li J., Wang J.,
RA   Deng Y., Ran L., Shi X., Wang X., Wu Q., Li C., Ren X., Wang J., Wang X.,
RA   Li D., Liu D., Zhang X., Ji Z., Zhao W., Sun Y., Zhang Z., Bao J., Han Y.,
RA   Dong L., Ji J., Chen P., Wu S., Liu J., Xiao Y., Bu D., Tan J., Yang L.,
RA   Ye C., Zhang J., Xu J., Zhou Y., Yu Y., Zhang B., Zhuang S., Wei H.,
RA   Liu B., Lei M., Yu H., Li Y., Xu H., Wei S., He X., Fang L., Zhang Z.,
RA   Zhang Y., Huang X., Su Z., Tong W., Li J., Tong Z., Li S., Ye J., Wang L.,
RA   Fang L., Lei T., Chen C.-S., Chen H.-C., Xu Z., Li H., Huang H., Zhang F.,
RA   Xu H., Li N., Zhao C., Li S., Dong L., Huang Y., Li L., Xi Y., Qi Q.,
RA   Li W., Zhang B., Hu W., Zhang Y., Tian X., Jiao Y., Liang X., Jin J.,
RA   Gao L., Zheng W., Hao B., Liu S.-M., Wang W., Yuan L., Cao M.,
RA   McDermott J., Samudrala R., Wang J., Wong G.K.-S., Yang H.;
RT   "The genomes of Oryza sativa: a history of duplications.";
RL   PLoS Biol. 3:266-281(2005).
RN   [6]
RP   FUNCTION, SUBCELLULAR LOCATION, TISSUE SPECIFICITY, AND DISRUPTION
RP   PHENOTYPE.
RX   PubMed=27208287; DOI=10.1104/pp.16.00325;
RA   Zhang Z., Tan J., Shi Z., Xie Q., Xing Y., Liu C., Chen Q., Zhu H.,
RA   Wang J., Zhang J., Zhang G.;
RT   "Albino leaf1 that encodes the sole octotricopeptide repeat protein is
RT   responsible for chloroplast development.";
RL   Plant Physiol. 171:1182-1191(2016).
CC   -!- FUNCTION: Probable RNA-binding protein that plays an essential role in
CC       chloroplast development. Regulates the ribosomal proteins homeostasis
CC       and ribosomal RNA development in chloroplasts. Involved the regulation
CC       of 16S rRNA and required for the expression of chloroplast-associated
CC       photosynthetic genes. {ECO:0000269|PubMed:27208287}.
CC   -!- SUBCELLULAR LOCATION: Plastid, chloroplast
CC       {ECO:0000269|PubMed:27208287}.
CC   -!- TISSUE SPECIFICITY: Expressed in roots, leaf sheaths, veins of leaf
CC       blade, mature leaves, endodermis of culm, panicles and anthers.
CC       {ECO:0000269|PubMed:27208287}.
CC   -!- DISRUPTION PHENOTYPE: Leaf albino phenotype, reduced root length, and
CC       partial seedling lethality. {ECO:0000269|PubMed:27208287}.
CC   -!- SEQUENCE CAUTION:
CC       Sequence=BAF12314.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305};
CC       Sequence=BAS84771.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305};
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DR   EMBL; AC114983; AAP20833.1; -; Genomic_DNA.
DR   EMBL; DP000009; ABF96703.1; -; Genomic_DNA.
DR   EMBL; DP000009; ABF96704.1; -; Genomic_DNA.
DR   EMBL; DP000009; ABF96705.1; -; Genomic_DNA.
DR   EMBL; AP008209; BAF12314.1; ALT_SEQ; Genomic_DNA.
DR   EMBL; AP014959; BAS84771.1; ALT_SEQ; Genomic_DNA.
DR   EMBL; AP014959; BAS84772.1; -; Genomic_DNA.
DR   EMBL; CM000140; EAZ27387.1; -; Genomic_DNA.
DR   RefSeq; XP_015628330.1; XM_015772844.1.
DR   AlphaFoldDB; Q84MH1; -.
DR   SMR; Q84MH1; -.
DR   STRING; 4530.OS03T0425000-03; -.
DR   PaxDb; Q84MH1; -.
DR   PRIDE; Q84MH1; -.
DR   EnsemblPlants; Os03t0425000-03; Os03t0425000-03; Os03g0425000.
DR   GeneID; 4333151; -.
DR   Gramene; Os03t0425000-03; Os03t0425000-03; Os03g0425000.
DR   KEGG; osa:4333151; -.
DR   eggNOG; ENOG502QUHX; Eukaryota.
DR   HOGENOM; CLU_028932_0_0_1; -.
DR   InParanoid; Q84MH1; -.
DR   OMA; QMDRSFF; -.
DR   OrthoDB; 558345at2759; -.
DR   Proteomes; UP000000763; Chromosome 3.
DR   Proteomes; UP000007752; Chromosome 3.
DR   Proteomes; UP000059680; Chromosome 3.
DR   ExpressionAtlas; Q84MH1; baseline and differential.
DR   GO; GO:0009507; C:chloroplast; IMP:UniProtKB.
DR   GO; GO:0005759; C:mitochondrial matrix; IBA:GO_Central.
DR   GO; GO:0042646; C:plastid nucleoid; IEA:EnsemblPlants.
DR   GO; GO:0035770; C:ribonucleoprotein granule; IBA:GO_Central.
DR   GO; GO:0003723; F:RNA binding; IBA:GO_Central.
DR   GO; GO:1901259; P:chloroplast rRNA processing; IMP:UniProtKB.
DR   GO; GO:0000963; P:mitochondrial RNA processing; IBA:GO_Central.
DR   GO; GO:0044528; P:regulation of mitochondrial mRNA stability; IBA:GO_Central.
DR   InterPro; IPR013584; RAP.
DR   Pfam; PF08373; RAP; 1.
DR   SMART; SM00952; RAP; 1.
DR   PROSITE; PS51286; RAP; 1.
PE   2: Evidence at transcript level;
KW   Chloroplast; Plastid; Reference proteome; RNA-binding; rRNA processing;
KW   Transit peptide.
FT   TRANSIT         1..32
FT                   /note="Chloroplast"
FT                   /evidence="ECO:0000255"
FT   CHAIN           33..640
FT                   /note="RAP domain-containing protein, chloroplastic"
FT                   /evidence="ECO:0000255"
FT                   /id="PRO_0000438501"
FT   DOMAIN          575..633
FT                   /note="RAP"
FT                   /evidence="ECO:0000255|PROSITE-ProRule:PRU00619"
FT   REGION          111..158
FT                   /note="Disordered"
FT                   /evidence="ECO:0000256|SAM:MobiDB-lite"
FT   COMPBIAS        118..133
FT                   /note="Basic residues"
FT                   /evidence="ECO:0000256|SAM:MobiDB-lite"
SQ   SEQUENCE   640 AA;  70791 MW;  B90DF1E74FD81587 CRC64;
     MEAALLRPPP LAARGGVSIA IAFSVSRLPS AAAAAAAGKP RKLAPPACRC RATPQWQLDF
     LGAEADTEAD GGDDDDDLDL DLSLPAETND WCVRARRSAL RSIEARGLSP SLQRMVASPK
     KKNKKKKSKK TNLKQKKAAE PKPPRDTDDD EDDEEEADDD LEALLAGGGE LDDLELRVAQ
     FADGMFDEKR QRNREQFIQT LSAFSPAAPS NRSQEVSLNR SIVEARTADE VLALTAEVVA
     AVAKGLSPSP LTPLNIATAL HRIAKNMEAV SMLQTHRLGF ARSRDMSMLV GLAMVALPEC
     SPQGVSNISW ALSKIGGDLL YLPEMDRIAQ VAITKVDSFN AQNVANVAGS FASMRHSAPD
     LISALTRRAA ELVYTFKEQE LAQFLWGCAS LNECPYPLLD ALDTACRDAP SFDCHLHDTV
     PGMWQSSDKE ASSLKNSSNA YALNFTRDQI GNIAWSYAVL GQMDRPFFSG IWKTLSQFEE
     RKISDQYRED MMFVSQVYLA NQSLKLEYPH LDMCLRGDLE ENLTKTGRSK RFNQKMTSSF
     QKEVGRLLCS TGHEWNKEYT IDGYTVDAVL VDEKLAFEID GPSHFSRNLG TPLGHTAFKR
     RYIAAAGWNL VSLSHQEWEN LEGEFEQLEY LRRILGFDAE