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Comparative analysis of rRNA sequences from the large ribosomal subunit of more than 900 eukaryotic species reveals structural similarities in expansion segment ES39.
Stockholms universitet, Wenner-Grens institut.
Södertörns högskola, Institutionen för livsvetenskaper.
(Engelska)Manuskript (preprint) (Övrigt vetenskapligt)
Nationell ämneskategori
Biologiska vetenskaper
Identifikatorer
URN: urn:nbn:se:sh:diva-32044OAI: oai:DiVA.org:sh-32044DiVA, id: diva2:1073781
Anmärkning

Som manuskript i avhandling. As manuscript in dissertation.

Tillgänglig från: 2008-04-24 Skapad: 2017-02-13 Senast uppdaterad: 2017-02-13Bibliografiskt granskad
Ingår i avhandling
1. Ribosome and ribosomal RNA Structure: An experimental and computational analysis of expansion segments in eukaryotic ribosomal RNA
Öppna denna publikation i ny flik eller fönster >>Ribosome and ribosomal RNA Structure: An experimental and computational analysis of expansion segments in eukaryotic ribosomal RNA
2008 (Engelska)Doktorsavhandling, sammanläggning (Övrigt vetenskapligt)
Abstract [en]

Ribosomes are large ribonucleoprotein complexes which incorporate amino acids into peptide chains during translational process in all types of living cells. The eukaryotic ribosome is larger compared to its prokaryotic counterpart. The size differences are due to a larger protein part and that the rRNA contains eukaryote specific expansion segments (ES). Cryo-EM reconstruction has visualized many ES on the ribosomal surface which have given clues about function and structural features. However, the secondary structures of most ES are unknown or ill defined. In this thesis, the secondary and also to a certain extent the tertiary structures of several ES are determined by using computational methods and biochemical experimental techniques. The juxtaposition of ES6 close to ES3 in the Cryo-EM image of the yeast ribosome suggested that ES3 and ES6 might interact. A computational analysis of more than 2900 sequences shows that a complementary helical region of seven to nine contiguous base pairs can form between ES3 and ES6 in almost all analyzed sequences. Biochemical in situ experiments support the proposed interaction. Secondary structure models are presented for ES3 and ES6 in 18S rRNA and ES39 in 28S rRNA, where homologous structural elements could be modeled in the experimentally analyzed ribosomes from fungi, plants and mammals. The structure models were further supported by computational methods where the ES6 structure and the ES39 structure could be formed in more than 6000 and 900 sequences respectively. A tertiary structure model of ES3 and ES6 including the helical interaction is presented. An in vitro transcribed and folded ES6 sequence differed from that observed in situ, suggesting that chaperones, ribosomal proteins, and/or the tertiary rRNA interaction could be involved in the in vivo folding of ES6. An analysis of the similarities between ES39 structures suggests that it might be under selective constraint to preserve its secondary structure.

Ort, förlag, år, upplaga, sidor
Stockholm: Wenner-Gren Institute for Experimental Biology, Stockholm university, 2008. s. 72
Nyckelord
eukaryotes, expansion segment, ribosomes, rRNA, secondary structure, structure of rRNA.
Nationell ämneskategori
Cell- och molekylärbiologi
Identifikatorer
urn:nbn:se:sh:diva-32043 (URN)978-91-7155-603-5 (ISBN)
Disputation
2008-05-23, William-Olssonsalen, Geovetenskapens hus, Svante Arrhenius väg 8 A, Stockholm, 13:00 (Engelska)
Opponent
Handledare
Tillgänglig från: 2017-02-13 Skapad: 2017-02-13 Senast uppdaterad: 2018-01-13Bibliografiskt granskad

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Alkemar, GunnarNygård, Odd

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Biologiska vetenskaper

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Totalt: 148 träffar
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