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EMBO reports 8, 5, 470–476 (2007)
doi:10.1038/sj.embor.7400945
AOP Published online: 23 March 2007
RNA channelling by the archaeal exosome
Esben Lorentzen1, 2, Andrzej Dziembowski3†, Doris Lindner1, Bertrand Seraphin3 & Elena Conti1, 2
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1 European Molecular Biology Laboratory (EMBL), Meyerhofstrasse 1, D-69117, Heidelberg, Germany
2 Max-Planck-Institute of Biochemistry, Am Klopferspitz 18, D-82152, Martinsried, Germany
3 Equipe Labellisée La Ligue, CGM, CNRS UPR2167, Associée à l'Université Pierre et Marie Curie, Avenue de la Terrasse, 91198 Gif sur Yvette Cedex, France
To whom correspondence should be addressed
Esben Lorentzen Tel: +49 6221 3878537; Fax: +49 6221 387 8519; E-mail: lorentze@embl.de
Elena Conti Tel: +49 6221 3878537; Fax: +49 6221 387 8519; E-mail: conti@embl.de
† Present address: Department of Genetics & Biotechnology, Warsaw University, Pawinskiego 5a, Poland
Received 6 December 2006; Accepted 5 February 2007; Published online 23 March 2007.
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Abstract
Exosomes are complexes containing 3'  5' exoribonucleases that have important roles in processing, decay and quality control of various RNA molecules. Archaeal exosomes consist of a hexameric core of three active RNase PH subunits (ribosomal RNA processing factor (Rrp)41) and three inactive RNase PH subunits (Rrp42). A trimeric ring of subunits with putative RNA-binding domains (Rrp4/cep1 synthetic lethality (Csl)4) is positioned on top of the hexamer on the opposite side to the RNA degrading sites. Here, we present the 1.6 Å resolution crystal structure of the nine-subunit exosome of Sulfolobus solfataricus and the 2.3 Å structure of this complex bound to an RNA substrate designed to be partly trimmed rather than completely degraded. The RNA binds both at the active site on one side of the molecule and on the opposite side in the narrowest constriction of the central channel. Multiple substrate-binding sites and the entrapment of the substrate in the central channel provide a rationale for the processive degradation of extended RNAs and the stalling of structured RNAs.
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