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60S ribosomal protein L23a (Large ribosomal subunit protein uL23)

 RL23A_HUMAN             Reviewed;         156 AA.
P62750; B2R5B2; P29316; P39024; Q92774;
16-AUG-2004, integrated into UniProtKB/Swiss-Prot.
16-AUG-2004, sequence version 1.
18-JUL-2018, entry version 158.
RecName: Full=60S ribosomal protein L23a;
AltName: Full=Large ribosomal subunit protein uL23 {ECO:0000303|PubMed:24524803};
Name=RPL23A;
Homo sapiens (Human).
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini;
Catarrhini; Hominidae; Homo.
NCBI_TaxID=9606;
[1]
NUCLEOTIDE SEQUENCE [MRNA].
TISSUE=Melanoma;
Jiang H., Lin J., Tao J., Fisher P.B.;
Submitted (JUL-1996) to the EMBL/GenBank/DDBJ databases.
[2]
NUCLEOTIDE SEQUENCE [MRNA].
TISSUE=Liver;
Reddy K.B., Lin C.W., Howe P.H.;
Submitted (SEP-1993) to the EMBL/GenBank/DDBJ databases.
[3]
NUCLEOTIDE SEQUENCE [MRNA].
PubMed=8662070; DOI=10.1007/BF02660056;
Fan W., Cai W., Parimoo S., Lennon G.G., Weissman S.M.;
"Identification of seven new human MHC class I region genes around the
HLA-F locus.";
Immunogenetics 44:97-103(1996).
[4]
NUCLEOTIDE SEQUENCE [GENOMIC DNA].
PubMed=9417910; DOI=10.1006/geno.1997.5038;
Fan W., Christensen M., Eichler E., Zhang X., Lennon G.;
"Cloning, sequencing, gene organization, and localization of the human
ribosomal protein RPL23A gene.";
Genomics 46:234-239(1997).
[5]
NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
TISSUE=Adrenal gland;
PubMed=14702039; DOI=10.1038/ng1285;
Ota T., Suzuki Y., Nishikawa T., Otsuki T., Sugiyama T., Irie R.,
Wakamatsu A., Hayashi K., Sato H., Nagai K., Kimura K., Makita H.,
Sekine M., Obayashi M., Nishi T., Shibahara T., Tanaka T., Ishii S.,
Yamamoto J., Saito K., Kawai Y., Isono Y., Nakamura Y., Nagahari K.,
Murakami K., Yasuda T., Iwayanagi T., Wagatsuma M., Shiratori A.,
Sudo H., Hosoiri T., Kaku Y., Kodaira H., Kondo H., Sugawara M.,
Takahashi M., Kanda K., Yokoi T., Furuya T., Kikkawa E., Omura Y.,
Abe K., Kamihara K., Katsuta N., Sato K., Tanikawa M., Yamazaki M.,
Ninomiya K., Ishibashi T., Yamashita H., Murakawa K., Fujimori K.,
Tanai H., Kimata M., Watanabe M., Hiraoka S., Chiba Y., Ishida S.,
Ono Y., Takiguchi S., Watanabe S., Yosida M., Hotuta T., Kusano J.,
Kanehori K., Takahashi-Fujii A., Hara H., Tanase T.-O., Nomura Y.,
Togiya S., Komai F., Hara R., Takeuchi K., Arita M., Imose N.,
Musashino K., Yuuki H., Oshima A., Sasaki N., Aotsuka S.,
Yoshikawa Y., Matsunawa H., Ichihara T., Shiohata N., Sano S.,
Moriya S., Momiyama H., Satoh N., Takami S., Terashima Y., Suzuki O.,
Nakagawa S., Senoh A., Mizoguchi H., Goto Y., Shimizu F., Wakebe H.,
Hishigaki H., Watanabe T., Sugiyama A., Takemoto M., Kawakami B.,
Yamazaki M., Watanabe K., Kumagai A., Itakura S., Fukuzumi Y.,
Fujimori Y., Komiyama M., Tashiro H., Tanigami A., Fujiwara T.,
Ono T., Yamada K., Fujii Y., Ozaki K., Hirao M., Ohmori Y.,
Kawabata A., Hikiji T., Kobatake N., Inagaki H., Ikema Y., Okamoto S.,
Okitani R., Kawakami T., Noguchi S., Itoh T., Shigeta K., Senba T.,
Matsumura K., Nakajima Y., Mizuno T., Morinaga M., Sasaki M.,
Togashi T., Oyama M., Hata H., Watanabe M., Komatsu T.,
Mizushima-Sugano J., Satoh T., Shirai Y., Takahashi Y., Nakagawa K.,
Okumura K., Nagase T., Nomura N., Kikuchi H., Masuho Y., Yamashita R.,
Nakai K., Yada T., Nakamura Y., Ohara O., Isogai T., Sugano S.;
"Complete sequencing and characterization of 21,243 full-length human
cDNAs.";
Nat. Genet. 36:40-45(2004).
[6]
NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
Mural R.J., Istrail S., Sutton G.G., Florea L., Halpern A.L.,
Mobarry C.M., Lippert R., Walenz B., Shatkay H., Dew I., Miller J.R.,
Flanigan M.J., Edwards N.J., Bolanos R., Fasulo D., Halldorsson B.V.,
Hannenhalli S., Turner R., Yooseph S., Lu F., Nusskern D.R.,
Shue B.C., Zheng X.H., Zhong F., Delcher A.L., Huson D.H.,
Kravitz S.A., Mouchard L., Reinert K., Remington K.A., Clark A.G.,
Waterman M.S., Eichler E.E., Adams M.D., Hunkapiller M.W., Myers E.W.,
Venter J.C.;
Submitted (JUL-2005) to the EMBL/GenBank/DDBJ databases.
[7]
NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
TISSUE=Skin;
PubMed=15489334; DOI=10.1101/gr.2596504;
The MGC Project Team;
"The status, quality, and expansion of the NIH full-length cDNA
project: the Mammalian Gene Collection (MGC).";
Genome Res. 14:2121-2127(2004).
[8]
NUCLEOTIDE SEQUENCE [MRNA] OF 10-156.
TISSUE=Liver;
Bonaldo M., Soares M.B.;
"Identification and localization of six liver expressed genes on human
chromosome 13.";
Submitted (JUL-1993) to the EMBL/GenBank/DDBJ databases.
[9]
IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
TISSUE=Cervix carcinoma;
PubMed=17081983; DOI=10.1016/j.cell.2006.09.026;
Olsen J.V., Blagoev B., Gnad F., Macek B., Kumar C., Mortensen P.,
Mann M.;
"Global, in vivo, and site-specific phosphorylation dynamics in
signaling networks.";
Cell 127:635-648(2006).
[10]
IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
TISSUE=Cervix carcinoma;
PubMed=18669648; DOI=10.1073/pnas.0805139105;
Dephoure N., Zhou C., Villen J., Beausoleil S.A., Bakalarski C.E.,
Elledge S.J., Gygi S.P.;
"A quantitative atlas of mitotic phosphorylation.";
Proc. Natl. Acad. Sci. U.S.A. 105:10762-10767(2008).
[11]
PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT THR-45, AND IDENTIFICATION
BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
TISSUE=Cervix carcinoma;
PubMed=20068231; DOI=10.1126/scisignal.2000475;
Olsen J.V., Vermeulen M., Santamaria A., Kumar C., Miller M.L.,
Jensen L.J., Gnad F., Cox J., Jensen T.S., Nigg E.A., Brunak S.,
Mann M.;
"Quantitative phosphoproteomics reveals widespread full
phosphorylation site occupancy during mitosis.";
Sci. Signal. 3:RA3-RA3(2010).
[12]
IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
PubMed=21269460; DOI=10.1186/1752-0509-5-17;
Burkard T.R., Planyavsky M., Kaupe I., Breitwieser F.P.,
Buerckstuemmer T., Bennett K.L., Superti-Furga G., Colinge J.;
"Initial characterization of the human central proteome.";
BMC Syst. Biol. 5:17-17(2011).
[13]
IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
PubMed=21406692; DOI=10.1126/scisignal.2001570;
Rigbolt K.T., Prokhorova T.A., Akimov V., Henningsen J.,
Johansen P.T., Kratchmarova I., Kassem M., Mann M., Olsen J.V.,
Blagoev B.;
"System-wide temporal characterization of the proteome and
phosphoproteome of human embryonic stem cell differentiation.";
Sci. Signal. 4:RS3-RS3(2011).
[14]
PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-43, AND IDENTIFICATION
BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
TISSUE=Cervix carcinoma;
PubMed=23186163; DOI=10.1021/pr300630k;
Zhou H., Di Palma S., Preisinger C., Peng M., Polat A.N., Heck A.J.,
Mohammed S.;
"Toward a comprehensive characterization of a human cancer cell
phosphoproteome.";
J. Proteome Res. 12:260-271(2013).
[15]
NOMENCLATURE.
PubMed=24524803; DOI=10.1016/j.sbi.2014.01.002;
Ban N., Beckmann R., Cate J.H.D., Dinman J.D., Dragon F., Ellis S.R.,
Lafontaine D.L.J., Lindahl L., Liljas A., Lipton J.M., McAlear M.A.,
Moore P.B., Noller H.F., Ortega J., Panse V.G., Ramakrishnan V.,
Spahn C.M.T., Steitz T.A., Tchorzewski M., Tollervey D., Warren A.J.,
Williamson J.R., Wilson D., Yonath A., Yusupov M.;
"A new system for naming ribosomal proteins.";
Curr. Opin. Struct. Biol. 24:165-169(2014).
[16]
IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
TISSUE=Liver;
PubMed=24275569; DOI=10.1016/j.jprot.2013.11.014;
Bian Y., Song C., Cheng K., Dong M., Wang F., Huang J., Sun D.,
Wang L., Ye M., Zou H.;
"An enzyme assisted RP-RPLC approach for in-depth analysis of human
liver phosphoproteome.";
J. Proteomics 96:253-262(2014).
[17]
FUNCTION, INTERACTION WITH LYAR; GNL2 AND MDM2, AND INDUCTION BY GNL2.
PubMed=26203195; DOI=10.1074/jbc.M115.637280;
Datta D., Anbarasu K., Rajabather S., Priya R.S., Desai P.,
Mahalingam S.;
"Nucleolar GTP-binding protein-1 (NGP-1) promotes G1 to S phase
transition by activating cyclin-dependent kinase inhibitor p21
Cip1/Waf1.";
J. Biol. Chem. 290:21536-21552(2015).
[18]
IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
PubMed=25944712; DOI=10.1002/pmic.201400617;
Vaca Jacome A.S., Rabilloud T., Schaeffer-Reiss C., Rompais M.,
Ayoub D., Lane L., Bairoch A., Van Dorsselaer A., Carapito C.;
"N-terminome analysis of the human mitochondrial proteome.";
Proteomics 15:2519-2524(2015).
[19]
SUMOYLATION [LARGE SCALE ANALYSIS] AT LYS-14, AND IDENTIFICATION BY
MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
PubMed=28112733; DOI=10.1038/nsmb.3366;
Hendriks I.A., Lyon D., Young C., Jensen L.J., Vertegaal A.C.,
Nielsen M.L.;
"Site-specific mapping of the human SUMO proteome reveals co-
modification with phosphorylation.";
Nat. Struct. Mol. Biol. 24:325-336(2017).
[20]
STRUCTURE BY ELECTRON MICROSCOPY (5.0 ANGSTROMS) OF 80S RIBOSOME.
PubMed=23636399; DOI=10.1038/nature12104;
Anger A.M., Armache J.P., Berninghausen O., Habeck M., Subklewe M.,
Wilson D.N., Beckmann R.;
"Structures of the human and Drosophila 80S ribosome.";
Nature 497:80-85(2013).
[21]
VARIANT THR-99.
PubMed=22431104; DOI=10.1002/humu.22081;
Gazda H.T., Preti M., Sheen M.R., O'Donohue M.F., Vlachos A.,
Davies S.M., Kattamis A., Doherty L., Landowski M., Buros C.,
Ghazvinian R., Sieff C.A., Newburger P.E., Niewiadomska E.,
Matysiak M., Glader B., Atsidaftos E., Lipton J.M., Gleizes P.E.,
Beggs A.H.;
"Frameshift mutation in p53 regulator RPL26 is associated with
multiple physical abnormalities and a specific pre-ribosomal RNA
processing defect in diamond-blackfan anemia.";
Hum. Mutat. 33:1037-1044(2012).
-!- FUNCTION: Component of the ribosome, a large ribonucleoprotein
complex responsible for the synthesis of proteins in the cell.
Binds a specific region on the 26S rRNA. May promote p53/TP53
degradation possibly through the stimulation of MDM2-mediated TP53
polyubiquitination (PubMed:26203195). {ECO:0000250,
ECO:0000269|PubMed:26203195}.
-!- SUBUNIT: Interacts with LYAR and GNL2 (PubMed:26203195). Interacts
with MDM2; this interaction may promote MDM2-mediated p53/TP53
polyubiquitination (PubMed:26203195).
{ECO:0000269|PubMed:26203195}.
-!- INTERACTION:
Q5S007:LRRK2; NbExp=2; IntAct=EBI-353254, EBI-5323863;
-!- INDUCTION: May be down-regulated by GNL2 (at protein level).
{ECO:0000269|PubMed:26203195}.
-!- PTM: N-terminus is methylated by METTL11A/NTM1. {ECO:0000250}.
-!- PTM: Citrullinated by PADI4. {ECO:0000250}.
-!- SIMILARITY: Belongs to the universal ribosomal protein uL23
family. {ECO:0000305}.
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EMBL; U43701; AAB03210.1; -; mRNA.
EMBL; U02032; AAA03341.1; -; mRNA.
EMBL; U37230; AAB17510.1; -; mRNA.
EMBL; AF001689; AAC51934.1; -; Genomic_DNA.
EMBL; AK312123; BAG35059.1; -; mRNA.
EMBL; CH471159; EAW51132.1; -; Genomic_DNA.
EMBL; BC014459; AAH14459.1; -; mRNA.
EMBL; BC058041; AAH58041.1; -; mRNA.
EMBL; L13799; AAA35681.1; -; mRNA.
CCDS; CCDS11241.1; -.
RefSeq; NP_000975.2; NM_000984.5.
UniGene; Hs.419463; -.
PDB; 4UG0; EM; -; LX=1-156.
PDB; 4V6X; EM; 5.00 A; CX=1-156.
PDB; 5AJ0; EM; 3.50 A; AX=1-156.
PDB; 5LKS; EM; 3.60 A; LX=1-156.
PDB; 5T2C; EM; 3.60 A; R=1-156.
PDB; 6EK0; EM; 2.90 A; LX=1-156.
PDBsum; 4UG0; -.
PDBsum; 4V6X; -.
PDBsum; 5AJ0; -.
PDBsum; 5LKS; -.
PDBsum; 5T2C; -.
PDBsum; 6EK0; -.
ProteinModelPortal; P62750; -.
SMR; P62750; -.
BioGrid; 112067; 239.
CORUM; P62750; -.
IntAct; P62750; 63.
MINT; P62750; -.
STRING; 9606.ENSP00000389103; -.
DrugBank; DB02494; Alpha-Hydroxy-Beta-Phenyl-Propionic Acid.
DrugBank; DB07374; Anisomycin.
DrugBank; DB08437; Puromycin.
iPTMnet; P62750; -.
PhosphoSitePlus; P62750; -.
SwissPalm; P62750; -.
BioMuta; RPL23A; -.
DMDM; 51338637; -.
SWISS-2DPAGE; P62750; -.
EPD; P62750; -.
MaxQB; P62750; -.
PaxDb; P62750; -.
PeptideAtlas; P62750; -.
PRIDE; P62750; -.
ProteomicsDB; 57421; -.
TopDownProteomics; P62750; -.
Ensembl; ENST00000422514; ENSP00000389103; ENSG00000198242.
GeneID; 6147; -.
KEGG; hsa:6147; -.
UCSC; uc002hci.4; human.
CTD; 6147; -.
DisGeNET; 6147; -.
EuPathDB; HostDB:ENSG00000198242.13; -.
GeneCards; RPL23A; -.
H-InvDB; HIX0016623; -.
HGNC; HGNC:10317; RPL23A.
HPA; HPA051754; -.
MIM; 602326; gene.
neXtProt; NX_P62750; -.
OpenTargets; ENSG00000198242; -.
PharmGKB; PA34691; -.
eggNOG; KOG1751; Eukaryota.
eggNOG; COG0089; LUCA.
GeneTree; ENSGT00390000003263; -.
HOGENOM; HOG000231365; -.
HOVERGEN; HBG056619; -.
InParanoid; P62750; -.
KO; K02893; -.
PhylomeDB; P62750; -.
TreeFam; TF314116; -.
Reactome; R-HSA-156827; L13a-mediated translational silencing of Ceruloplasmin expression.
Reactome; R-HSA-156902; Peptide chain elongation.
Reactome; R-HSA-1799339; SRP-dependent cotranslational protein targeting to membrane.
Reactome; R-HSA-192823; Viral mRNA Translation.
Reactome; R-HSA-2408557; Selenocysteine synthesis.
Reactome; R-HSA-6791226; Major pathway of rRNA processing in the nucleolus and cytosol.
Reactome; R-HSA-72689; Formation of a pool of free 40S subunits.
Reactome; R-HSA-72706; GTP hydrolysis and joining of the 60S ribosomal subunit.
Reactome; R-HSA-72764; Eukaryotic Translation Termination.
Reactome; R-HSA-9010553; Regulation of expression of SLITs and ROBOs.
Reactome; R-HSA-975956; Nonsense Mediated Decay (NMD) independent of the Exon Junction Complex (EJC).
Reactome; R-HSA-975957; Nonsense Mediated Decay (NMD) enhanced by the Exon Junction Complex (EJC).
ChiTaRS; RPL23A; human.
GeneWiki; RPL23A; -.
GenomeRNAi; 6147; -.
PRO; PR:P62750; -.
Proteomes; UP000005640; Chromosome 17.
Bgee; ENSG00000198242; -.
CleanEx; HS_RPL23A; -.
ExpressionAtlas; P62750; baseline and differential.
Genevisible; P62750; HS.
GO; GO:0005737; C:cytoplasm; HDA:UniProtKB.
GO; GO:0005829; C:cytosol; TAS:Reactome.
GO; GO:0022625; C:cytosolic large ribosomal subunit; HDA:UniProtKB.
GO; GO:0070062; C:extracellular exosome; HDA:UniProtKB.
GO; GO:0005730; C:nucleolus; HDA:UniProtKB.
GO; GO:0005634; C:nucleus; IDA:UniProtKB.
GO; GO:0045296; F:cadherin binding; HDA:BHF-UCL.
GO; GO:0003723; F:RNA binding; HDA:UniProtKB.
GO; GO:0019843; F:rRNA binding; IEA:UniProtKB-KW.
GO; GO:0003735; F:structural constituent of ribosome; IBA:GO_Central.
GO; GO:0008283; P:cell proliferation; IMP:UniProtKB.
GO; GO:0000184; P:nuclear-transcribed mRNA catabolic process, nonsense-mediated decay; TAS:Reactome.
GO; GO:0000027; P:ribosomal large subunit assembly; IBA:GO_Central.
GO; GO:0006614; P:SRP-dependent cotranslational protein targeting to membrane; TAS:Reactome.
GO; GO:0006412; P:translation; IBA:GO_Central.
GO; GO:0006413; P:translational initiation; TAS:Reactome.
Gene3D; 3.30.70.330; -; 1.
HAMAP; MF_01369_A; Ribosomal_L23_A; 1.
InterPro; IPR012677; Nucleotide-bd_a/b_plait_sf.
InterPro; IPR019985; Ribosomal_L23.
InterPro; IPR012678; Ribosomal_L23/L15e_core_dom_sf.
InterPro; IPR001014; Ribosomal_L23/L25_CS.
InterPro; IPR005633; Ribosomal_L23/L25_N.
InterPro; IPR013025; Ribosomal_L25/23.
Pfam; PF00276; Ribosomal_L23; 1.
Pfam; PF03939; Ribosomal_L23eN; 1.
SUPFAM; SSF54189; SSF54189; 1.
TIGRFAMs; TIGR03636; uL23_arch; 1.
PROSITE; PS00050; RIBOSOMAL_L23; 1.
1: Evidence at protein level;
3D-structure; Acetylation; Citrullination; Complete proteome;
Isopeptide bond; Methylation; Phosphoprotein; Polymorphism;
Reference proteome; Ribonucleoprotein; Ribosomal protein; RNA-binding;
rRNA-binding; Ubl conjugation.
INIT_MET 1 1 Removed. {ECO:0000250|UniProtKB:P62751}.
CHAIN 2 156 60S ribosomal protein L23a.
/FTId=PRO_0000129467.
MOD_RES 2 2 N,N,N-trimethylalanine.
{ECO:0000250|UniProtKB:P62751}.
MOD_RES 41 41 Citrulline. {ECO:0000250}.
MOD_RES 43 43 Phosphoserine.
{ECO:0000244|PubMed:23186163}.
MOD_RES 45 45 Phosphothreonine.
{ECO:0000244|PubMed:20068231}.
MOD_RES 70 70 N6-acetyllysine.
{ECO:0000250|UniProtKB:P62751}.
CROSSLNK 14 14 Glycyl lysine isopeptide (Lys-Gly)
(interchain with G-Cter in SUMO2).
{ECO:0000244|PubMed:28112733}.
VARIANT 99 99 I -> T (rare variant found in Diamond-
Blackfan anemia patients; unknown
pathological significance;
dbSNP:rs151327030).
{ECO:0000269|PubMed:22431104}.
/FTId=VAR_069221.
CONFLICT 2 2 A -> IP (in Ref. 2; AAA03341).
{ECO:0000305}.
CONFLICT 78 78 K -> N (in Ref. 3; AAB17510).
{ECO:0000305}.
CONFLICT 110 110 K -> S (in Ref. 3; AAB17510).
{ECO:0000305}.
SEQUENCE 156 AA; 17695 MW; 3980E77B47FAB70E CRC64;
MAPKAKKEAP APPKAEAKAK ALKAKKAVLK GVHSHKKKKI RTSPTFRRPK TLRLRRQPKY
PRKSAPRRNK LDHYAIIKFP LTTESAMKKI EDNNTLVFIV DVKANKHQIK QAVKKLYDID
VAKVNTLIRP DGEKKAYVRL APDYDALDVA NKIGII


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