{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2025,11,9]],"date-time":"2025-11-09T07:38:20Z","timestamp":1762673900511},"reference-count":53,"publisher":"Oxford University Press (OUP)","issue":"2","license":[{"start":{"date-parts":[[2016,10,4]],"date-time":"2016-10-04T00:00:00Z","timestamp":1475539200000},"content-version":"vor","delay-in-days":1398,"URL":"http:\/\/creativecommons.org\/licenses\/by-nc\/3.0"}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2013,1]]},"DOI":"10.1093\/nar\/gks1259","type":"journal-article","created":{"date-parts":[[2012,12,8]],"date-time":"2012-12-08T08:14:26Z","timestamp":1354954466000},"page":"1284-1293","source":"Crossref","is-referenced-by-count":68,"title":["Promiscuous behaviour of archaeal ribosomal proteins: Implications for eukaryotic ribosome evolution"],"prefix":"10.1093","volume":"41","author":[{"given":"Jean-Paul","family":"Armache","sequence":"first","affiliation":[]},{"given":"Andreas M.","family":"Anger","sequence":"additional","affiliation":[]},{"given":"Viter","family":"M\u00e1rquez","sequence":"additional","affiliation":[]},{"given":"Sibylle","family":"Franckenberg","sequence":"additional","affiliation":[]},{"given":"Thomas","family":"Fr\u00f6hlich","sequence":"additional","affiliation":[]},{"given":"Elizabeth","family":"Villa","sequence":"additional","affiliation":[]},{"given":"Otto","family":"Berninghausen","sequence":"additional","affiliation":[]},{"given":"Michael","family":"Thomm","sequence":"additional","affiliation":[]},{"given":"Georg J.","family":"Arnold","sequence":"additional","affiliation":[]},{"given":"Roland","family":"Beckmann","sequence":"additional","affiliation":[]},{"given":"Daniel N.","family":"Wilson","sequence":"additional","affiliation":[]}],"member":"286","published-online":{"date-parts":[[2012,12,6]]},"reference":[{"key":"key\n\t\t\t\t20170512100022_gks1259-B1","doi-asserted-by":"crossref","first-page":"1234","DOI":"10.1038\/nature08403","article-title":"What recent ribosome structures have revealed about the mechanism of translation","volume":"461","author":"Schmeing","year":"2009","journal-title":"Nature"},{"key":"key\n\t\t\t\t20170512100022_gks1259-B2","doi-asserted-by":"crossref","first-page":"560","DOI":"10.1038\/nsmb.2313","article-title":"One core, two shells: bacterial and eukaryotic ribosomes","volume":"19","author":"Melnikov","year":"2012","journal-title":"Nat. Struct. Mol. Biol."},{"key":"key\n\t\t\t\t20170512100022_gks1259-B3","doi-asserted-by":"crossref","first-page":"1","DOI":"10.1101\/cshperspect.a011536","article-title":"The structure and function of the eukaryotic ribosome","volume":"4","author":"Wilson","year":"2012","journal-title":"Cold. Spring. Harb. Perspect. Biol."},{"key":"key\n\t\t\t\t20170512100022_gks1259-B4","doi-asserted-by":"crossref","first-page":"327","DOI":"10.1038\/35030006","article-title":"Structure of the 30S ribosomal subunit","volume":"407","author":"Wimberly","year":"2000","journal-title":"Nature"},{"key":"key\n\t\t\t\t20170512100022_gks1259-B5","doi-asserted-by":"crossref","first-page":"827","DOI":"10.1126\/science.1117230","article-title":"Structures of the bacterial ribosome at 3.5 \u00c5 resolution","volume":"310","author":"Schuwirth","year":"2005","journal-title":"Science"},{"key":"key\n\t\t\t\t20170512100022_gks1259-B6","doi-asserted-by":"crossref","first-page":"1935","DOI":"10.1126\/science.1131127","article-title":"Structure of the 70S ribosome complexed with mRNA and tRNA","volume":"313","author":"Selmer","year":"2006","journal-title":"Science"},{"key":"key\n\t\t\t\t20170512100022_gks1259-B7","doi-asserted-by":"crossref","first-page":"1524","DOI":"10.1126\/science.1212642","article-title":"The structure of the eukaryotic ribosome at 3.0 A resolution","volume":"334","author":"Ben-Shem","year":"2011","journal-title":"Science"},{"key":"key\n\t\t\t\t20170512100022_gks1259-B8","doi-asserted-by":"crossref","first-page":"730","DOI":"10.1126\/science.1198308","article-title":"Crystal structure of the eukaryotic 40S ribosomal subunit in complex with initiation factor 1","volume":"331","author":"Rabl","year":"2011","journal-title":"Science"},{"key":"key\n\t\t\t\t20170512100022_gks1259-B9","doi-asserted-by":"crossref","first-page":"941","DOI":"10.1126\/science.1211204","article-title":"Crystal structure of the eukaryotic 60S ribosomal subunit in complex with initiation factor 6","volume":"334","author":"Klinge","year":"2011","journal-title":"Science"},{"key":"key\n\t\t\t\t20170512100022_gks1259-B10","doi-asserted-by":"crossref","first-page":"5382","DOI":"10.1093\/nar\/gkf693","article-title":"Comparative analysis of ribosomal proteins in complete genomes: an example of reductive evolution at the domain scale","volume":"30","author":"Lecompte","year":"2002","journal-title":"Nucleic Acids Res."},{"key":"key\n\t\t\t\t20170512100022_gks1259-B11","doi-asserted-by":"crossref","first-page":"53","DOI":"10.1016\/j.resmic.2010.10.004","article-title":"On the last common ancestor and early evolution of eukaryotes: reconstructing the history of mitochondrial ribosomes","volume":"162","author":"Desmond","year":"2010","journal-title":"Res. Microbiol."},{"key":"key\n\t\t\t\t20170512100022_gks1259-B12","doi-asserted-by":"crossref","first-page":"e36972","DOI":"10.1371\/journal.pone.0036972","article-title":"Phylogenomics of prokaryotic ribosomal proteins","volume":"7","author":"Yutin","year":"2012","journal-title":"PLoS One"},{"key":"key\n\t\t\t\t20170512100022_gks1259-B13","doi-asserted-by":"crossref","first-page":"501","DOI":"10.1038\/nature10829","article-title":"Structural basis of highly conserved ribosome recycling in eukaryotes and archaea","volume":"482","author":"Becker","year":"2012","journal-title":"Nature"},{"key":"key\n\t\t\t\t20170512100022_gks1259-B14","doi-asserted-by":"crossref","first-page":"905","DOI":"10.1126\/science.289.5481.905","article-title":"The complete atomic structure of the large ribosomal subunit at 2.4 \u00c5 resolution","volume":"289","author":"Ban","year":"2000","journal-title":"Science"},{"key":"key\n\t\t\t\t20170512100022_gks1259-B15","doi-asserted-by":"crossref","first-page":"145","DOI":"10.1016\/j.jmb.2012.01.018","article-title":"Cryo-EM structure of the archaeal 50S ribosomal subunit in complex with initiation factor 6 and implications for ribosome evolution","volume":"418","author":"Greber","year":"2012","journal-title":"J. Mol. Biol."},{"key":"key\n\t\t\t\t20170512100022_gks1259-B16","doi-asserted-by":"crossref","first-page":"390","DOI":"10.1007\/BF02529736","article-title":"Thermococcus alcaliphilus sp. nov., a new hyperthermophilic archaeum growing on polysulfide at alkaline pH","volume":"164","author":"Keller","year":"1995","journal-title":"Arch. Microbiol."},{"key":"key\n\t\t\t\t20170512100022_gks1259-B17","doi-asserted-by":"crossref","first-page":"263","DOI":"10.1016\/S0723-2020(11)80197-9","article-title":"Methanococcus igneus sp. nov., a novel hyperthermophilic methanogen from a shallow submarine hydrothermal system","volume":"13","author":"Burggraf","year":"1990","journal-title":"Syst. Appl. Microbiol."},{"key":"key\n\t\t\t\t20170512100022_gks1259-B18","doi-asserted-by":"crossref","first-page":"260","DOI":"10.1128\/MMBR.43.2.260-296.1979","article-title":"Methanogens: reevaluation of a unique biological group","volume":"43","author":"Balch","year":"1979","journal-title":"Microbiol. Rev."},{"key":"key\n\t\t\t\t20170512100022_gks1259-B19","doi-asserted-by":"crossref","first-page":"455","DOI":"10.1111\/j.1432-1033.1986.tb09689.x","article-title":"Differential features of ribosomes and of poly(U)-programmed cell-free systems derived from sulfur-dependent archaebacterial species","volume":"157","author":"Londei","year":"1986","journal-title":"Eur. J. Biochem."},{"key":"key\n\t\t\t\t20170512100022_gks1259-B20","first-page":"271","volume-title":"Subcellular Fractionation. A Practical Approach","author":"Bommer","year":"1996"},{"key":"key\n\t\t\t\t20170512100022_gks1259-B21","doi-asserted-by":"crossref","first-page":"1215","DOI":"10.1016\/j.jmb.2010.11.055","article-title":"Proteomic characterization of archaeal ribosomes reveals the presence of novel archaeal-specific ribosomal proteins","volume":"405","author":"Marquez","year":"2011","journal-title":"J. Mol. Biol."},{"key":"key\n\t\t\t\t20170512100022_gks1259-B22","doi-asserted-by":"crossref","first-page":"4713","DOI":"10.1073\/pnas.71.12.4713","article-title":"Total reconstitution of functionally active 50S ribosomal subunits from E. coli","volume":"71","author":"Nierhaus","year":"1974","journal-title":"Proc. Natl Acad. Sci. USA"},{"key":"key\n\t\t\t\t20170512100022_gks1259-B23","doi-asserted-by":"crossref","first-page":"401","DOI":"10.1016\/0003-2697(70)90376-3","article-title":"Ribosomal proteins. VII 2D polyacrylamide gel electrophoresis for fingerprinting of ribosomal proteins","volume":"36","author":"Kaltschmidt","year":"1970","journal-title":"Anal. Biochem."},{"key":"key\n\t\t\t\t20170512100022_gks1259-B24","doi-asserted-by":"crossref","first-page":"753","DOI":"10.1016\/0022-2836(88)90207-0","article-title":"Direct localization of the tRNA-anticodon interaction site on the Escherichia coli 30 S ribosomal subunit by electron microscopy and computerized image averaging","volume":"203","author":"Wagenknecht","year":"1988","journal-title":"J. Mol. Biol."},{"key":"key\n\t\t\t\t20170512100022_gks1259-B25","doi-asserted-by":"crossref","first-page":"334","DOI":"10.1016\/S1047-8477(03)00069-8","article-title":"Accurate determination of local defocus and specimen tilt in electron microscopy","volume":"142","author":"Mindell","year":"2003","journal-title":"J. Struct. Biol."},{"key":"key\n\t\t\t\t20170512100022_gks1259-B26","doi-asserted-by":"crossref","first-page":"190","DOI":"10.1006\/jsbi.1996.0030","article-title":"SPIDER and WEB: processing and visualization of images in 3D electron microscopy and related fields","volume":"116","author":"Frank","year":"1996","journal-title":"J. Struct. Biol."},{"key":"key\n\t\t\t\t20170512100022_gks1259-B27","doi-asserted-by":"crossref","first-page":"3320","DOI":"10.1093\/bioinformatics\/bti504","article-title":"Sequence to structure (S2S): display, manipulate and interconnect RNA data from sequence to structure","volume":"21","author":"Jossinet","year":"2005","journal-title":"Bioinformatics"},{"key":"key\n\t\t\t\t20170512100022_gks1259-B28","doi-asserted-by":"crossref","first-page":"725","DOI":"10.1006\/jmbi.2001.5359","article-title":"Crystal structure of the 30 S ribosomal subunit from Thermus thermophilus: structure of the proteins and their interactions with 16 S RNA","volume":"316","author":"Brodersen","year":"2002","journal-title":"J. Mol. Biol."},{"key":"key\n\t\t\t\t20170512100022_gks1259-B29","doi-asserted-by":"crossref","first-page":"8593","DOI":"10.1073\/pnas.1003995107","article-title":"Structure of the 70S ribosome bound to release factor 2 and a substrate analog provides insights into catalysis of peptide release","volume":"107","author":"Jin","year":"2010","journal-title":"Proc. Natl Acad. Sci. USA"},{"key":"key\n\t\t\t\t20170512100022_gks1259-B30","doi-asserted-by":"crossref","first-page":"981","DOI":"10.1126\/science.1202692","article-title":"Structures of the bacterial ribosome in classical and hybrid states of tRNA binding","volume":"332","author":"Dunkle","year":"2011","journal-title":"Science"},{"key":"key\n\t\t\t\t20170512100022_gks1259-B31","doi-asserted-by":"crossref","first-page":"2057","DOI":"10.1093\/bioinformatics\/btq321","article-title":"Assemble: an interactive graphical tool to analyze and build RNA architectures at the 2D and 3D levels","volume":"26","author":"Jossinet","year":"2010","journal-title":"Bioinformatics"},{"key":"key\n\t\t\t\t20170512100022_gks1259-B32","doi-asserted-by":"crossref","first-page":"19748","DOI":"10.1073\/pnas.1009999107","article-title":"Cryo-EM structure and rRNA model of a translating eukaryotic 80S ribosome at 5.5-A resolution","volume":"107","author":"Armache","year":"2010","journal-title":"Proc. Natl Acad. Sci. USA"},{"key":"key\n\t\t\t\t20170512100022_gks1259-B33","doi-asserted-by":"crossref","first-page":"2126","DOI":"10.1107\/S0907444904019158","article-title":"Coot: model-building tools for molecular graphics","volume":"60","author":"Emsley","year":"2004","journal-title":"Acta Crystallogr. D Biol. Crystallogr."},{"key":"key\n\t\t\t\t20170512100022_gks1259-B34","doi-asserted-by":"crossref","first-page":"4673","DOI":"10.1093\/nar\/22.22.4673","article-title":"CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice","volume":"22","author":"Thompson","year":"1994","journal-title":"Nucleic Acids Res."},{"key":"key\n\t\t\t\t20170512100022_gks1259-B35","doi-asserted-by":"crossref","first-page":"779","DOI":"10.1006\/jmbi.1993.1626","article-title":"Comparative protein modelling by satisfaction of spatial restraints","volume":"234","author":"Sali","year":"1993","journal-title":"J. Mol. Biol."},{"key":"key\n\t\t\t\t20170512100022_gks1259-B36","doi-asserted-by":"crossref","first-page":"1605","DOI":"10.1002\/jcc.20084","article-title":"UCSF Chimera\u2014a visualization system for exploratory research and analysis","volume":"25","author":"Pettersen","year":"2004","journal-title":"J. Comput. Chem."},{"key":"key\n\t\t\t\t20170512100022_gks1259-B37","doi-asserted-by":"crossref","first-page":"673","DOI":"10.1016\/j.str.2008.03.005","article-title":"Flexible fitting of atomic structures into electron microscopy maps using molecular dynamics","volume":"16","author":"Trabuco","year":"2008","journal-title":"Structure"},{"key":"key\n\t\t\t\t20170512100022_gks1259-B38","doi-asserted-by":"crossref","first-page":"33","DOI":"10.1016\/0263-7855(96)00018-5","article-title":"VMD\u2014Visual molecular dynamics","volume":"14","author":"Humphrey","year":"1996","journal-title":"J. Mol. Graphics"},{"key":"key\n\t\t\t\t20170512100022_gks1259-B39","doi-asserted-by":"crossref","first-page":"4214","DOI":"10.1093\/emboj\/20.15.4214","article-title":"The kink-turn: a new RNA secondary structure motif","volume":"20","author":"Klein","year":"2001","journal-title":"EMBO J."},{"key":"key\n\t\t\t\t20170512100022_gks1259-B40","doi-asserted-by":"crossref","first-page":"141","DOI":"10.1016\/j.jmb.2004.03.076","article-title":"The roles of ribosomal proteins in the structure assembly, and evolution of the large ribosomal subunit","volume":"340","author":"Klein","year":"2004","journal-title":"J. Mol. Biol."},{"key":"key\n\t\t\t\t20170512100022_gks1259-B41","doi-asserted-by":"crossref","first-page":"807","DOI":"10.1016\/j.str.2004.02.033","article-title":"Molecular basis of box C\/D RNA-protein interactions; cocrystal structure of archaeal L7Ae and a box C\/D RNA","volume":"12","author":"Moore","year":"2004","journal-title":"Structure"},{"key":"key\n\t\t\t\t20170512100022_gks1259-B42","doi-asserted-by":"crossref","first-page":"302","DOI":"10.1038\/nature05151","article-title":"Crystal structure of an H\/ACA box ribonucleoprotein particle","volume":"443","author":"Li","year":"2006","journal-title":"Nature"},{"key":"key\n\t\t\t\t20170512100022_gks1259-B43","doi-asserted-by":"crossref","first-page":"14573","DOI":"10.1073\/pnas.1005556107","article-title":"Ribosomal protein L7Ae is a subunit of archaeal RNase P","volume":"107","author":"Cho","year":"2010","journal-title":"Proc. Natl Acad. Sci. USA"},{"key":"key\n\t\t\t\t20170512100022_gks1259-B44","doi-asserted-by":"crossref","first-page":"19754","DOI":"10.1073\/pnas.1010005107","article-title":"Localization of eukaryote-specific ribosomal proteins in a 5.5-A cryo-EM map of the 80S eukaryotic ribosome","volume":"107","author":"Armache","year":"2010","journal-title":"Proc. Natl Acad. Sci. USA"},{"key":"key\n\t\t\t\t20170512100022_gks1259-B45","doi-asserted-by":"crossref","first-page":"685","DOI":"10.1016\/j.mib.2005.10.013","article-title":"Small non-coding RNAs in Archaea","volume":"8","author":"Dennis","year":"2005","journal-title":"Curr. Opin. Microbiol."},{"key":"key\n\t\t\t\t20170512100022_gks1259-B46","doi-asserted-by":"crossref","first-page":"123","DOI":"10.1261\/rna.7128905","article-title":"3D models of yeast RNase P\/MRP proteins Rpp1p and Pop3p","volume":"11","author":"Dlakic","year":"2005","journal-title":"RNA"},{"key":"key\n\t\t\t\t20170512100022_gks1259-B47","doi-asserted-by":"crossref","first-page":"931","DOI":"10.1093\/nar\/30.4.931","article-title":"Archaeal ribosomal protein L7 is a functional homolog of the eukaryotic 15.5kD\/Snu13p snoRNP core protein","volume":"30","author":"Kuhn","year":"2002","journal-title":"Nucleic Acids Res."},{"key":"key\n\t\t\t\t20170512100022_gks1259-B48","doi-asserted-by":"crossref","first-page":"1253","DOI":"10.1093\/hmg\/ddn015","article-title":"Mutation of ribosomal protein RPS24 in Diamond-Blackfan anemia results in a ribosome biogenesis disorder","volume":"17","author":"Choesmel","year":"2008","journal-title":"Hum. Mol. Genet."},{"key":"key\n\t\t\t\t20170512100022_gks1259-B49","doi-asserted-by":"crossref","first-page":"5553","DOI":"10.1021\/bi9003205","article-title":"Structure, stability, and flexibility of ribosomal protein L14e from Sulfolobus solfataricus","volume":"48","author":"Edmondson","year":"2009","journal-title":"Biochemistry"},{"key":"key\n\t\t\t\t20170512100022_gks1259-B50","doi-asserted-by":"crossref","first-page":"274","DOI":"10.1016\/j.mib.2011.04.015","article-title":"Phylogeny and evolution of the Archaea: one hundred genomes later","volume":"14","author":"Brochier-Armanet","year":"2011","journal-title":"Curr. Opin. Microbiol."},{"key":"key\n\t\t\t\t20170512100022_gks1259-B51","doi-asserted-by":"crossref","first-page":"2","DOI":"10.1186\/1471-2105-3-2","article-title":"The comparative RNA web (CRW) site: an online database of comparative sequence and structure information for ribosomal, intron, and other RNAs","volume":"3","author":"Cannone","year":"2002","journal-title":"BMC Bioinformatics"},{"key":"key\n\t\t\t\t20170512100022_gks1259-B52","doi-asserted-by":"crossref","first-page":"939","DOI":"10.1016\/j.molcel.2010.08.022","article-title":"Structural basis for substrate placement by an archaeal box C\/D ribonucleoprotein particle","volume":"39","author":"Xue","year":"2010","journal-title":"Mol. Cell"},{"key":"key\n\t\t\t\t20170512100022_gks1259-B53","doi-asserted-by":"crossref","first-page":"499","DOI":"10.1017\/S1355838201002515","article-title":"Geometric nomenclature and classification of RNA base pairs","volume":"7","author":"Leontis","year":"2001","journal-title":"RNA"}],"container-title":["Nucleic Acids Research"],"original-title":[],"language":"en","link":[{"URL":"http:\/\/academic.oup.com\/nar\/article-pdf\/41\/2\/1284\/16956783\/gks1259.pdf","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2020,7,18]],"date-time":"2020-07-18T09:18:08Z","timestamp":1595063888000},"score":1,"resource":{"primary":{"URL":"https:\/\/academic.oup.com\/nar\/article-lookup\/doi\/10.1093\/nar\/gks1259"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2012,12,6]]},"references-count":53,"journal-issue":{"issue":"2","published-online":{"date-parts":[[2012,12,6]]},"published-print":{"date-parts":[[2013,1]]}},"URL":"https:\/\/doi.org\/10.1093\/nar\/gks1259","relation":{},"ISSN":["1362-4962","0305-1048"],"issn-type":[{"value":"1362-4962","type":"electronic"},{"value":"0305-1048","type":"print"}],"subject":[],"published":{"date-parts":[[2012,12,6]]}}}