YCED2_ARATH
ID YCED2_ARATH Reviewed; 229 AA.
AC Q9C5M1; B3H4W6; Q9LT28;
DT 15-MAR-2017, integrated into UniProtKB/Swiss-Prot.
DT 01-JUN-2001, sequence version 1.
DT 03-AUG-2022, entry version 119.
DE RecName: Full=Large ribosomal RNA subunit accumulation protein YCED homolog 2, chloroplastic {ECO:0000305};
DE AltName: Full=Protein DUF177B {ECO:0000303|PubMed:27574185};
DE Flags: Precursor;
GN OrderedLocusNames=At3g19800 {ECO:0000312|Araport:AT3G19800};
GN ORFNames=MPN9.4 {ECO:0000312|EMBL:BAB01294.1};
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 {ECO:0000312|EMBL:AAK25860.1};
RN [1]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=cv. Columbia;
RX PubMed=10819329; DOI=10.1093/dnares/7.2.131;
RA Sato S., Nakamura Y., Kaneko T., Katoh T., Asamizu E., Tabata S.;
RT "Structural analysis of Arabidopsis thaliana chromosome 3. I. Sequence
RT features of the regions of 4,504,864 bp covered by sixty P1 and TAC
RT clones.";
RL DNA Res. 7:131-135(2000).
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].
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 [4]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
RA Brover V.V., Troukhan M.E., Alexandrov N.A., Lu Y.-P., Flavell R.B.,
RA Feldmann K.A.;
RT "Full-length cDNA from Arabidopsis thaliana.";
RL Submitted (MAR-2002) to the EMBL/GenBank/DDBJ databases.
RN [5]
RP FUNCTION.
RX PubMed=27574185; DOI=10.1093/jxb/erw311;
RA Yang J., Suzuki M., McCarty D.R.;
RT "Essential role of conserved DUF177A protein in plastid 23S rRNA
RT accumulation and plant embryogenesis.";
RL J. Exp. Bot. 67:5447-5460(2016).
CC -!- FUNCTION: May play a role in synthesis, processing and/or stability of
CC 23S rRNA. {ECO:0000250|UniProtKB:Q9LT27}.
CC -!- SUBCELLULAR LOCATION: Plastid, chloroplast {ECO:0000255}.
CC -!- ALTERNATIVE PRODUCTS:
CC Event=Alternative splicing; Named isoforms=2;
CC Name=1;
CC IsoId=Q9C5M1-1; Sequence=Displayed;
CC Name=2;
CC IsoId=Q9C5M1-2; Sequence=VSP_058783;
CC -!- SIMILARITY: Belongs to the DUF177 domain family. {ECO:0000305}.
CC -!- SEQUENCE CAUTION:
CC Sequence=BAB01294.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305};
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DR EMBL; AB025631; BAB01294.1; ALT_SEQ; Genomic_DNA.
DR EMBL; CP002686; AEE76290.1; -; Genomic_DNA.
DR EMBL; CP002686; AEE76291.1; -; Genomic_DNA.
DR EMBL; AF360150; AAK25860.1; -; mRNA.
DR EMBL; AY056306; AAL07155.1; -; mRNA.
DR EMBL; AY088088; AAM65634.1; -; mRNA.
DR RefSeq; NP_001118666.1; NM_001125194.1. [Q9C5M1-2]
DR RefSeq; NP_566648.1; NM_112870.5. [Q9C5M1-1]
DR AlphaFoldDB; Q9C5M1; -.
DR STRING; 3702.AT3G19800.1; -.
DR PaxDb; Q9C5M1; -.
DR PRIDE; Q9C5M1; -.
DR ProteomicsDB; 243248; -. [Q9C5M1-1]
DR EnsemblPlants; AT3G19800.1; AT3G19800.1; AT3G19800. [Q9C5M1-1]
DR EnsemblPlants; AT3G19800.2; AT3G19800.2; AT3G19800. [Q9C5M1-2]
DR GeneID; 821517; -.
DR Gramene; AT3G19800.1; AT3G19800.1; AT3G19800. [Q9C5M1-1]
DR Gramene; AT3G19800.2; AT3G19800.2; AT3G19800. [Q9C5M1-2]
DR KEGG; ath:AT3G19800; -.
DR Araport; AT3G19800; -.
DR TAIR; locus:2092256; AT3G19800.
DR eggNOG; ENOG502QPK5; Eukaryota.
DR InParanoid; Q9C5M1; -.
DR OMA; SLCIHKH; -.
DR PhylomeDB; Q9C5M1; -.
DR PRO; PR:Q9C5M1; -.
DR Proteomes; UP000006548; Chromosome 3.
DR ExpressionAtlas; Q9C5M1; baseline and differential.
DR GO; GO:0009507; C:chloroplast; IEA:UniProtKB-SubCell.
DR GO; GO:0042254; P:ribosome biogenesis; IEA:UniProtKB-KW.
DR InterPro; IPR003772; YceD.
DR InterPro; IPR044985; YceD_plant.
DR PANTHER; PTHR37734; PTHR37734; 1.
DR Pfam; PF02620; YceD; 1.
PE 2: Evidence at transcript level;
KW Alternative splicing; Chloroplast; Plastid; Reference proteome;
KW Ribosome biogenesis; Transit peptide.
FT TRANSIT 1..42
FT /note="Chloroplast"
FT /evidence="ECO:0000305"
FT CHAIN 43..229
FT /note="Large ribosomal RNA subunit accumulation protein
FT YCED homolog 2, chloroplastic"
FT /id="PRO_0000439066"
FT VAR_SEQ 39..41
FT /note="Missing (in isoform 2)"
FT /id="VSP_058783"
SQ SEQUENCE 229 AA; 25289 MW; E37CE70F230D9E9C CRC64;
MDVRCLISPN LLNSKIKVSG NTHHLPFSSL SKKHQASSPI QAAINGGGSS KTVKRLITLS
PSEGKWNGNW KTQYDVSLRD LQLQDLVEDG PPNSRVSVDL SVQRHASMGL SVDGRIMTSI
ARKCSICSSL YPRLIDTSFT VWILPSSREN RASTLPEIGG DDPSVIYVRP GYEANLDSLV
QDTIRLTTYA KDICSDSCEK SEPTLHYVGQ TNTASVDKRW SRLLELKKK
