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"https://www.rcsb.org/structure/7ZUW", "database": "PDB", "categories": [ "3D Structure" ] }, { "id": "7ZUX", "url": "https://www.rcsb.org/structure/7ZUX", "database": "PDB", "categories": [ "3D Structure" ] }, { "id": "7ZW0", "url": "https://www.rcsb.org/structure/7ZW0", "database": "PDB", "categories": [ "3D Structure" ] }, { "id": "8BQD", "url": "https://www.rcsb.org/structure/8BQD", "database": "PDB", "categories": [ "3D Structure" ] }, { "id": "8BQX", "url": "https://www.rcsb.org/structure/8BQX", "database": "PDB", "categories": [ "3D Structure" ] }, { "id": "8C00", "url": "https://www.rcsb.org/structure/8C00", "database": "PDB", "categories": [ "3D Structure" ] }, { "id": "8C01", "url": "https://www.rcsb.org/structure/8C01", "database": "PDB", "categories": [ "3D Structure" ] }, { "id": "8C83", "url": "https://www.rcsb.org/structure/8C83", "database": "PDB", "categories": [ "3D Structure" ] }, { "id": "8CAH", "url": "https://www.rcsb.org/structure/8CAH", "database": "PDB", "categories": [ "3D Structure" ] }, { "id": "8CAS", "url": "https://www.rcsb.org/structure/8CAS", "database": "PDB", "categories": [ "3D Structure" ] }, { "id": "8CBJ", "url": "https://www.rcsb.org/structure/8CBJ", "database": "PDB", "categories": [ "3D Structure" ] }, { "id": "PF00312", "url": "http://pfam.xfam.org/family/PF00312", "database": "Pfam", "categories": [ "Protein Classification" ] }, { "id": "PF08069", "url": "http://pfam.xfam.org/family/PF08069", "database": "Pfam", "categories": [ "Protein Classification" ] }, { "id": "PR_P05756", "url": "http://purl.obolibrary.org/obo/PR_P05756", "database": "PRO", "categories": [ "Protein" ] }, { "id": "NP_010349", "url": "https://www.ncbi.nlm.nih.gov/protein/NP_010349", "database": "RefSeq", "categories": [ "Protein" ] }, { "id": "S000002471", "url": "https://www.yeastgenome.org/locus/S000002471", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P05756", "url": "https://www.uniprot.org/uniprot/P05756", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "P05756-1", "url": "https://www.uniprot.org/uniprot/P05756-1", "database": "UniProtKB", "categories": [ "Protein" ] } ], "sequence": { "sequence": "MGRMHSAGKGISSSAIPYSRNAPAWFKLSSESVIEQIVKYARKGLTPSQIGVLLRDAHGVTQARVITGNKIMRILKSNGLAPEIPEDLYYLIKKAVSVRKHLERNRKDKDAKFRLILIESRIHRLARYYRTVAVLPPNWKYESATASALVN", "length": 151, "header": "sp|P05756-1|RS13_YEAST Isoform 1 of Small ribosomal subunit protein uS15 OS=Saccharomyces cerevisiae S288C OX=559292 GN=RPS13 PE=1 SV=3 CANONICAL=P05756-1" }, "isoforms": [ { "isoform_ac": "P05756-1", "url": "", "sequence": { "sequence": "MGRMHSAGKGISSSAIPYSRNAPAWFKLSSESVIEQIVKYARKGLTPSQIGVLLRDAHGVTQARVITGNKIMRILKSNGLAPEIPEDLYYLIKKAVSVRKHLERNRKDKDAKFRLILIESRIHRLARYYRTVAVLPPNWKYESATASALVN", "length": 151, "header": "sp|P05756-1|RS13_YEAST Isoform 1 of Small ribosomal subunit protein uS15 OS=Saccharomyces cerevisiae S288C OX=559292 GN=RPS13 PE=1 SV=3 CANONICAL=P05756-1" }, "locus": { "chromosome": "IV", "start_pos": 580449, "end_pos": 579458, "strand": "-", "evidence": [ { "database": "Ensembl Transcript", "id": "YDR064W_mRNA", "url": "https://www.ensembl.org/id/YDR064W_mRNA" }, { "database": "Ensembl Peptide", "id": "YDR064W", "url": "https://www.ensembl.org/id/YDR064W" } ] } } ], "glycosylation": [], "phosphorylation": [ { "start_pos": 12, "end_pos": 12, "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P05756", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P05756" }, { "database": "PubMed", "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "P05756", "url": "https://www.yeastgenome.org/locus/P05756" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser12" }, { "start_pos": 13, "end_pos": 13, "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "P05756", "url": "https://www.yeastgenome.org/locus/P05756" }, { "database": "iPTMnet", "id": "P05756", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P05756" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser13" }, { "start_pos": 14, "end_pos": 14, "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "P05756", "url": "https://www.yeastgenome.org/locus/P05756" }, { "database": "iPTMnet", "id": "P05756", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P05756" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ], "site_lbl": "Ser14" }, { "start_pos": 29, "end_pos": 29, "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P05756", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P05756" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ], "site_lbl": "Ser29" }, { "start_pos": 30, "end_pos": 30, "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P05756", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P05756" }, { "database": "PubMed", "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377" } ], "site_lbl": "Ser30" }, { "start_pos": 32, "end_pos": 32, "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P05756", "url": "https://www.uniprot.org/uniprot/P05756" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "iPTMnet", "id": "P05756", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P05756" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "P05756", "url": "https://www.yeastgenome.org/locus/P05756" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser32" } ], "glycation": [], "keywords": [], "publication": [ { "title": "The action of N-terminal acetyltransferases on yeast ribosomal proteins.", "journal": "J. Biol. Chem.", "date": "1999", "authors": "Arnold R J, Polevoda B, Reilly J P, Sherman F", "evidence": [ { "database": "UniProtKB", "id": "P05756", "url": "https://www.uniprot.org/uniprot/P05756" } ], "reference": [ { "type": "PubMed", "id": "10601260", "url": "https://glygen.org/publication/PubMed/10601260" } ] }, { "title": "Structure of the 80S ribosome from Saccharomyces cerevisiae -- tRNA-ribosome and subunit-subunit interactions.", "journal": "Cell", "date": "2001", "authors": "Sali A., Frank J., Blobel G., Penczek P.A., Beckmann R., Spahn C.M.T., Eswar N.", "evidence": [ { "database": "UniProtKB", "id": "P05756", "url": "https://www.uniprot.org/uniprot/P05756" } ], "reference": [ { "type": "PubMed", "id": "11701127", "url": "https://glygen.org/publication/PubMed/11701127" } ] }, { "title": "Domain movements of elongation factor eEF2 and the eukaryotic 80S ribosome facilitate tRNA translocation.", "journal": "EMBO J.", "date": "2004", "authors": "Andersen G.R., Frank J., Grassucci R.A., Penczek P.A., Beckmann R., Joergensen R., Spahn C.M.T., Ballesta J.P.G., Gomez-Lorenzo M.G.", "evidence": [ { "database": "UniProtKB", "id": "P05756", "url": "https://www.uniprot.org/uniprot/P05756" } ], "reference": [ { "type": "PubMed", "id": "14976550", "url": "https://glygen.org/publication/PubMed/14976550" } ] }, { "title": "Quantitative phosphoproteomics applied to the yeast pheromone signaling pathway.", "journal": "Molecular & cellular proteomics : MCP", "date": "2005-03", "authors": "Gruhler Albrecht, Olsen Jesper V, Mohammed Shabaz, Mortensen Peter, Faergeman Nils J, Mann Matthias, Jensen Ole N", "evidence": [ { "database": "iPTMnet", "id": "P05756", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P05756" } ], "reference": [ { "type": "PubMed", "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377" } ] }, { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P05756", "url": "https://www.uniprot.org/uniprot/P05756" }, { "database": "iPTMnet", "id": "P05756", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P05756" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "iPTMnet", "id": "P05756", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P05756" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Crystal structure of the eukaryotic ribosome.", "journal": "Science", "date": "2010", "authors": "Jenner L., Yusupov M., Ben-Shem A., Yusupova G.", "evidence": [ { "database": "UniProtKB", "id": "P05756", "url": "https://www.uniprot.org/uniprot/P05756" } ], "reference": [ { "type": "PubMed", "id": "21109664", "url": "https://glygen.org/publication/PubMed/21109664" } ] }, { "title": "Perturbation of the yeast N-acetyltransferase NatB induces elevation of protein phosphorylation levels.", "journal": "BMC genomics", "date": "2010-12-02", "authors": "Helbig Andreas O, Rosati Sara, Pijnappel Pim W W M, van Breukelen Bas, Timmers Marc H T H, Mohammed Shabaz, Slijper Monique, Heck Albert J R", "evidence": [ { "database": "iPTMnet", "id": "P05756", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P05756" } ], "reference": [ { "type": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ] }, { "title": "The structure of the eukaryotic ribosome at 3.0 A resolution.", "journal": "Science", "date": "2011", "authors": "Jenner L., Yusupov M., Ben-Shem A., Garreau de Loubresse N., Melnikov S., Yusupova G.", "evidence": [ { "database": "UniProtKB", "id": "P05756", "url": "https://www.uniprot.org/uniprot/P05756" } ], "reference": [ { "type": "PubMed", "id": "22096102", "url": "https://glygen.org/publication/PubMed/22096102" } ] }, { "title": "Sites of ubiquitin attachment in Saccharomyces cerevisiae.", "journal": "Proteomics", "date": "2012", "authors": "Eng J.K., Fields S., Lo R.S., Starita L.M., von Haller P.D.", "evidence": [ { "database": "UniProtKB", "id": "P05756", "url": "https://www.uniprot.org/uniprot/P05756" } ], "reference": [ { "type": "PubMed", "id": "22106047", "url": "https://glygen.org/publication/PubMed/22106047" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P05756", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P05756" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "The reference genome sequence of Saccharomyces cerevisiae: Then and now.", "journal": "G3 (Bethesda)", "date": "2014", "authors": "Engel Stacia R, Dietrich Fred S, Fisk Dianna G, Binkley Gail, Balakrishnan Rama, Costanzo Maria C, Dwight Selina S, Hitz Benjamin C, Karra Kalpana, Nash Robert S, Weng Shuai, Wong Edith D, Lloyd Paul, Skrzypek Marek S, Miyasato Stuart R, Simison Matt, Cherry J Michael", "evidence": [ { "database": "UniProtKB", "id": "P05756", "url": "https://www.uniprot.org/uniprot/P05756" } ], "reference": [ { "type": "PubMed", "id": "24374639", "url": "https://glygen.org/publication/PubMed/24374639" } ] }, { "title": "A new system for naming ribosomal proteins.", "journal": "Curr. Opin. Struct. Biol.", "date": "2014", "authors": "Ban N., Ramakrishnan V., Dinman J.D., Liljas A., Ortega J., Steitz T.A., Wilson D., Dragon F., Beckmann R., Warren A.J., Tollervey D., Lipton J.M., Tchorzewski M., Cate J.H.D., Ellis S.R., Lafontaine D.L.J., Lindahl L., McAlear M.A., Moore P.B., Noller H.F., Panse V.G., Spahn C.M.T., Williamson J.R., Yonath A., Yusupov M.", "evidence": [ { "database": "UniProtKB", "id": "P05756", "url": "https://www.uniprot.org/uniprot/P05756" } ], "reference": [ { "type": "PubMed", "id": "24524803", "url": "https://glygen.org/publication/PubMed/24524803" } ] }, { "title": "Isolation of seventeen proteins and amino-terminal amino acid sequences of eight proteins from cytoplasmic ribosomes of yeast.", "journal": "Biochemistry", "date": "1982", "authors": "Osawa S., Higo K., Otaka E.", "evidence": [ { "database": "UniProtKB", "id": "P05756", "url": "https://www.uniprot.org/uniprot/P05756" } ], "reference": [ { "type": "PubMed", "id": "6814480", "url": "https://glygen.org/publication/PubMed/6814480" } ] }, { "title": "Nucleotide sequence analysis of a 32,500 bp region of the right arm of Saccharomyces cerevisiae chromosome IV.", "journal": "Yeast", "date": "1996", "authors": "Bloecker H., Brandt P., Otto B., Ramlow S.", "evidence": [ { "database": "UniProtKB", "id": "P05756", "url": "https://www.uniprot.org/uniprot/P05756" } ], "reference": [ { "type": "PubMed", "id": "8789263", "url": "https://glygen.org/publication/PubMed/8789263" } ] }, { "title": "The nucleotide sequence of Saccharomyces cerevisiae chromosome IV.", "journal": "Nature", "date": "1997", "authors": "Andrews S., Bahr A., Bloecker H., Brandt P., Connor R., Du Z., Fulton L., Gentles S., Hawkins J., Hillier L.W., Johnson D., Latreille P., Mardis E., Mewes H.-W., Miller N., Niblett D., Oliver K., Schaefer M., Scharfe M., Vaudin M., Wambutt R., Waterston R., Wedler H., Wilson R., Chen E., Le T., Verhasselt P., Bowman S., Hunt S., Wagner G., Chung E., Nakahara K., Botstein D., Brueckner M., Davis R.W., Lin D., Hankeln T., Schneider C., Schmidt E.R., Duncan M., Favello A., Kucaba T., Rifkin L., Trevaskis E., Wohldman P., Barrell B.G., Rieger M., Berno A., Schroeder M., Ding H., Oh C., Oefner P., Schwarz S., Woelfl S., Kleine K., Becker A., Prydz H., Cooper J., Arnold W., Eide L.G., Kraemer C., Lashkari D., Allen E., Jimenez A., Kuester H., Hoheisel J.D., Pauley A., Paulin L., Brown D., Jaeger W., Volckaert G., Hyman R.W., Andre B., Perez-Alonso M., Araujo R., Komp C., Lew H., Namath A., Roberts D., Paricio N., Boskovic J., Louis E.J., Mulligan J.T., Delaveau T., Greco T., Johnston L., Nhan M., Jones L., Odell C., Menezes S., Johnston M., Pohl T.M., Harris D.E., Schramm S., McDonald S., Salom D., Bargues M., Cherry J.M., Ballesta J.P.G., Churcher C.M., Dedman K., Dietrich F.S., Dujon B., Goffeau A., Hamlin N., Hani J., Jacq C., Mueller-Auer S., Perea J., Perez-Ortin J.E., Rajandream M.A., Remacha M.A., Revuelta J.L., Vissers S., Walsh S.V., Zollner A., del Rey F., Jonniaux J.-L., Purnelle B., Saiz J.E., Urrestarazu L.A., Voet M., Wilcox L., Albermann K., Alt-Moerbe J., Aviles E., Baron L., Biteau N., Blugeon C., Brinkman R., Buitrago M.J., Carpenter J., Coster F., Garcia-Cantalejo J.M., Gattung S., Gomez-Peris A., Granotier C., Hallsworth K., Hanemann V., Heumann K., Hunicke-Smith S., Jier M., Kirsten J., Laamanen P., Langston Y., Legros Y., Moeller-Rieker S., Monnet A., Moro M., Mosedale D., Murphy L.D., Nussbaumer B., Peluso D., Petel F.X., Rasmussen S.W., Richards C., Riles L., Saluz H.P., Saren A.-M., Scholler P., Shogren T., Shore L., Shroff N., Soler-Mira A., Taich A., Vignati D., Wedler E., Winant A., Yelton M.A., Zaccaria P.", "evidence": [ { "database": "UniProtKB", "id": "P05756", "url": "https://www.uniprot.org/uniprot/P05756" } ], "reference": [ { "type": "PubMed", "id": "9169867", "url": "https://glygen.org/publication/PubMed/9169867" } ] }, { "title": "The list of cytoplasmic ribosomal proteins of Saccharomyces cerevisiae.", "journal": "Yeast", "date": "1998", "authors": "Mager W.H., Planta R.J.", "evidence": [ { "database": "UniProtKB", "id": "P05756", "url": "https://www.uniprot.org/uniprot/P05756" } ], "reference": [ { "type": "PubMed", "id": "9559554", "url": "https://glygen.org/publication/PubMed/9559554" } ] } ], "pathway": [ { "id": "sce:YDR064W", "name": "", "url": "https://www.genome.jp/dbget-bin/get_linkdb?-t+pathway+sce:YDR064W", "resource": "KEGG Pathway" } ], "orthologs": [ { "uniprot_canonical_ac": "P62277-1", "protein_name": "Small ribosomal subunit protein uS15", "gene_name": "RPS13", "tax_id": 9606, "organism": "Homo sapiens", "sequence": { "sequence": "MGRMHAPGKGLSQSALPYRRSVPTWLKLTSDDVKEQIYKLAKKGLTPSQIGVILRDSHGVAQVRFVTGNKILRILKSKGLAPDLPEDLYHLIKKAVAVRKHLERNRKDKDAKFRLILIESRIHRLARYYKTKRVLPPNWKYESSTASALVA", "length": 151 }, "evidence": [ { "id": "P05756", "url": "https://omabrowser.org/oma/group/P05756/", "database": "OMA" } ], "common_name": "Human" }, { "uniprot_canonical_ac": 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