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TitleStructure of a conserved retroviral RNA packaging element by NMR spectroscopy and cryo-electron tomography.
Journal, issue, pagesJ Mol Biol, Vol. 404, Issue 5, Page 751-772, Year 2010
Publish dateDec 17, 2010
AuthorsYasuyuki Miyazaki / Rossitza N Irobalieva / Blanton S Tolbert / Adjoa Smalls-Mantey / Kilali Iyalla / Kelsey Loeliger / Victoria D'Souza / Htet Khant / Michael F Schmid / Eric L Garcia / Alice Telesnitsky / Wah Chiu / Michael F Summers /
PubMed AbstractThe 5'-untranslated regions of all gammaretroviruses contain a conserved "double-hairpin motif" (Ψ(CD)) that is required for genome packaging. Both hairpins (SL-C and SL-D) contain GACG tetraloops ...The 5'-untranslated regions of all gammaretroviruses contain a conserved "double-hairpin motif" (Ψ(CD)) that is required for genome packaging. Both hairpins (SL-C and SL-D) contain GACG tetraloops that, in isolated RNAs, are capable of forming "kissing" interactions stabilized by two intermolecular G-C base pairs. We have determined the three-dimensional structure of the double hairpin from the Moloney murine leukemia virus ([Ψ(CD)](2), 132 nt, 42.8 kDa) using a (2)H-edited NMR-spectroscopy-based approach. This approach enabled the detection of (1)H-(1)H dipolar interactions that were not observed in previous studies of isolated SL-C and SL-D hairpin RNAs using traditional (1)H-(1)H correlated and (1)H-(13)C-edited NMR methods. The hairpins participate in intermolecular cross-kissing interactions (SL-C to SL-D' and SLC' to SL-D) and stack in an end-to-end manner (SL-C to SL-D and SL-C' to SL-D') that gives rise to an elongated overall shape (ca 95 Å×45 Å×25 Å). The global structure was confirmed by cryo-electron tomography (cryo-ET), making [Ψ(CD)](2) simultaneously the smallest RNA to be structurally characterized to date by cryo-ET and among the largest to be determined by NMR. Our findings suggest that, in addition to promoting dimerization, [Ψ(CD)](2) functions as a scaffold that helps initiate virus assembly by exposing a cluster of conserved UCUG elements for binding to the cognate nucleocapsid domains of assembling viral Gag proteins.
External linksJ Mol Biol / PubMed:20933521 / PubMed Central
MethodsEM (subtomogram averaging) / NMR (solution)
Structure data

EMDB-1806:
Cryo-electron tomography derived density map of a conserved retroviral RNA packaging element from Moloney Murine Leukemia Virus.
Method: EM (subtomogram averaging)

PDB-2l1f:
Structure of a conserved retroviral RNA packaging element by NMR spectroscopy and cryo-electron tomography
Method: SOLUTION NMR

Source
  • moloney murine leukemia virus
KeywordsRNA / retrovirus / packaging / cryo-ET

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