LIRP1_ORYSJ
ID LIRP1_ORYSJ Reviewed; 128 AA.
AC Q03200; Q0JRG1; Q7F737;
DT 01-OCT-1993, integrated into UniProtKB/Swiss-Prot.
DT 01-OCT-1993, sequence version 1.
DT 03-AUG-2022, entry version 93.
DE RecName: Full=Light-regulated protein, chloroplastic;
DE Flags: Precursor;
GN Name=LIR1; OrderedLocusNames=Os01g0102900, LOC_Os01g01340;
GN ORFNames=OsJ_00023 {ECO:0000312|EMBL:EAZ10195.1}, P0436E04.2, P0455C04.23,
GN P0672D08.50;
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 [MRNA], AND INDUCTION.
RC STRAIN=cv. Nohrin;
RX PubMed=8499615; DOI=10.1007/bf00039006;
RA Reimmann C., Dudler R.;
RT "Circadian rhythmicity in the expression of a novel light-regulated rice
RT gene.";
RL Plant Mol. Biol. 22:165-170(1993).
RN [2]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=cv. Nipponbare;
RX PubMed=12447438; DOI=10.1038/nature01184;
RA Sasaki T., Matsumoto T., Yamamoto K., Sakata K., Baba T., Katayose Y.,
RA Wu J., Niimura Y., Cheng Z., Nagamura Y., Antonio B.A., Kanamori H.,
RA Hosokawa S., Masukawa M., Arikawa K., Chiden Y., Hayashi M., Okamoto M.,
RA Ando T., Aoki H., Arita K., Hamada M., Harada C., Hijishita S., Honda M.,
RA Ichikawa Y., Idonuma A., Iijima M., Ikeda M., Ikeno M., Ito S., Ito T.,
RA Ito Y., Ito Y., Iwabuchi A., Kamiya K., Karasawa W., Katagiri S.,
RA Kikuta A., Kobayashi N., Kono I., Machita K., Maehara T., Mizuno H.,
RA Mizubayashi T., Mukai Y., Nagasaki H., Nakashima M., Nakama Y.,
RA Nakamichi Y., Nakamura M., Namiki N., Negishi M., Ohta I., Ono N., Saji S.,
RA Sakai K., Shibata M., Shimokawa T., Shomura A., Song J., Takazaki Y.,
RA Terasawa K., Tsuji K., Waki K., Yamagata H., Yamane H., Yoshiki S.,
RA Yoshihara R., Yukawa K., Zhong H., Iwama H., Endo T., Ito H., Hahn J.H.,
RA Kim H.-I., Eun M.-Y., Yano M., Jiang J., Gojobori T.;
RT "The genome sequence and structure of rice chromosome 1.";
RL Nature 420:312-316(2002).
RN [3]
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 [4]
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 [5]
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 [6]
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 [7]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
RC STRAIN=cv. Nipponbare;
RX PubMed=12869764; DOI=10.1126/science.1081288;
RG The rice full-length cDNA consortium;
RT "Collection, mapping, and annotation of over 28,000 cDNA clones from
RT japonica rice.";
RL Science 301:376-379(2003).
RN [8]
RP FUNCTION, DISRUPTION PHENOTYPE, REPRESSION BY LIGHT, INTERACTION WITH LFNR1
RP AND LFNR2, DISULFIDE BOND, AND SUBCELLULAR LOCATION.
RC STRAIN=cv. Nipponbare;
RX PubMed=26941088; DOI=10.1105/tpc.15.01027;
RA Yang C., Hu H., Ren H., Kong Y., Lin H., Guo J., Wang L., He Y., Ding X.,
RA Grabsztunowicz M., Mulo P., Chen T., Liu Y., Wu Z., Wu Y., Mao C., Wu P.,
RA Mo X.;
RT "LIGHT-INDUCED RICE1 regulates light-dependent attachment of LEAF-TYPE
RT FERREDOXIN-NADP+ OXIDOREDUCTASE to the thylakoid membrane in rice and
RT Arabidopsis.";
RL Plant Cell 28:712-728(2016).
CC -!- FUNCTION: Thylakoid-determinant subunit of high molecular weight LFNRs-
CC containing protein complexes. {ECO:0000269|PubMed:26941088}.
CC -!- SUBUNIT: Component of high molecular weight thylakoid LFNRs-containing
CC protein complexes containing LIR1, LFNR1, LFNR2, TIC62 and TROL
CC proteins. Interacts directly with LFNR1 and LFNR2; LIR1 increases the
CC affinity of LFNR1 and LFNR2 for TIC62 and subsequent thylakoid
CC relocalization. {ECO:0000269|PubMed:26941088}.
CC -!- SUBCELLULAR LOCATION: Plastid, chloroplast thylakoid membrane
CC {ECO:0000269|PubMed:26941088}; Peripheral membrane protein
CC {ECO:0000269|PubMed:26941088}; Stromal side
CC {ECO:0000269|PubMed:26941088}. Plastid, chloroplast envelope
CC {ECO:0000269|PubMed:26941088}. Plastid, chloroplast stroma
CC {ECO:0000269|PubMed:26941088}.
CC -!- INDUCTION: Expression is controlled by light and by a circadian clock
CC (PubMed:8499615, PubMed:26941088). Transcripts accumulate progressively
CC during the day and fade out during the night, however, mRNA stability
CC is enhanced during the night. Low levels during the day, accumulates
CC during the night (at protein level). Rapidly degraded upon illumination
CC (at protein level); this degradation coincides with the release of the
CC LFNR from the thylakoid membrane (PubMed:26941088).
CC {ECO:0000269|PubMed:26941088, ECO:0000269|PubMed:8499615}.
CC -!- PTM: May form interchain disulfide bonds with LFNR1 and LFNR2.
CC {ECO:0000269|PubMed:26941088}.
CC -!- DISRUPTION PHENOTYPE: Retarded growth. Reduced photosynthetic electron
CC transfer. Marked decrease in the accumulation of LFNR1 and LFNR2-
CC containing thylakoid protein complexes. {ECO:0000269|PubMed:26941088}.
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DR EMBL; X68807; CAA48706.1; -; mRNA.
DR EMBL; AP002818; BAB16320.1; -; Genomic_DNA.
DR EMBL; AP002969; BAB92145.1; -; Genomic_DNA.
DR EMBL; AP003727; BAD45513.1; -; Genomic_DNA.
DR EMBL; AP008207; BAF03667.1; -; Genomic_DNA.
DR EMBL; AP014957; BAS69939.1; -; Genomic_DNA.
DR EMBL; CM000138; EAZ10195.1; -; Genomic_DNA.
DR EMBL; AK067670; BAG90531.1; -; mRNA.
DR EMBL; AK120535; BAH00058.1; -; mRNA.
DR PIR; S33632; S33632.
DR RefSeq; XP_015617278.1; XM_015761792.1.
DR AlphaFoldDB; Q03200; -.
DR STRING; 4530.OS01T0102900-01; -.
DR PaxDb; Q03200; -.
DR PRIDE; Q03200; -.
DR EnsemblPlants; Os01t0102900-01; Os01t0102900-01; Os01g0102900.
DR GeneID; 4326442; -.
DR Gramene; Os01t0102900-01; Os01t0102900-01; Os01g0102900.
DR KEGG; osa:4326442; -.
DR eggNOG; ENOG502S43X; Eukaryota.
DR HOGENOM; CLU_154099_0_0_1; -.
DR InParanoid; Q03200; -.
DR OMA; REYLAYN; -.
DR OrthoDB; 1601928at2759; -.
DR Proteomes; UP000000763; Chromosome 1.
DR Proteomes; UP000007752; Chromosome 1.
DR Proteomes; UP000059680; Chromosome 1.
DR Genevisible; Q03200; OS.
DR GO; GO:0009941; C:chloroplast envelope; IDA:UniProtKB.
DR GO; GO:0009570; C:chloroplast stroma; IDA:UniProtKB.
DR GO; GO:0009535; C:chloroplast thylakoid membrane; IDA:UniProtKB.
DR GO; GO:0098807; C:chloroplast thylakoid membrane protein complex; IDA:UniProtKB.
DR GO; GO:0071482; P:cellular response to light stimulus; IEP:UniProtKB.
DR GO; GO:0007623; P:circadian rhythm; IEP:UniProtKB.
DR InterPro; IPR009856; Lir1.
DR PANTHER; PTHR36762; PTHR36762; 1.
DR Pfam; PF07207; Lir1; 1.
PE 1: Evidence at protein level;
KW Chloroplast; Disulfide bond; Membrane; Plastid; Reference proteome; Repeat;
KW Thylakoid; Transit peptide.
FT TRANSIT 1..?
FT /note="Chloroplast"
FT /evidence="ECO:0000255"
FT CHAIN ?..128
FT /note="Light-regulated protein, chloroplastic"
FT /evidence="ECO:0000255"
FT /id="PRO_0000021599"
FT REPEAT 58..72
FT /note="1"
FT REPEAT 111..125
FT /note="2"
FT REGION 58..125
FT /note="2 X 15 AA approximate repeats"
SQ SEQUENCE 128 AA; 13317 MW; 389D19D008EBD4D2 CRC64;
MQTAASSVVG LSAVLPAAVK GRSLQIQAPR RVALRVRAAA AAVAVEAAEV DYSSNISVFP
MEACDLIGGE ACNVQMYPEA KLSSSAAVAV SRAAAEEVDR DYLSYDEPTT VFPEEACDDL
GGEFCKAT
