A Multi-Perspective Proximity View on the Dynamic Head Region of the Ribosomal 40S Subunit
A comparison of overlapping proximity captures at the head region of the ribosomal 40S subunit (<i>hr40S</i>) in <i>Saccharomyces cerevisiae</i> from four adjacent perspectives, namely Asc1/RACK1, Rps2/uS5, Rps3/uS3, and Rps20/uS10, corroborates dynamic co-localization of pro...
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| Format: | Article |
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MDPI AG
2021-10-01
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| Series: | International Journal of Molecular Sciences |
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| Online Access: | https://www.mdpi.com/1422-0067/22/21/11653 |
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| author | Kerstin Schmitt Alina-Andrea Kraft Oliver Valerius |
| author_facet | Kerstin Schmitt Alina-Andrea Kraft Oliver Valerius |
| author_sort | Kerstin Schmitt |
| collection | DOAJ |
| description | A comparison of overlapping proximity captures at the head region of the ribosomal 40S subunit (<i>hr40S</i>) in <i>Saccharomyces cerevisiae</i> from four adjacent perspectives, namely Asc1/RACK1, Rps2/uS5, Rps3/uS3, and Rps20/uS10, corroborates dynamic co-localization of proteins that control activity and fate of both ribosomes and mRNA. Co-locating factors that associate with the <i>hr40S</i> are involved in (i) (de)ubiquitination of ribosomal proteins (Hel2, Bre5-Ubp3), (ii) clamping of inactive ribosomal subunits (Stm1), (iii) mRNA surveillance and vesicular transport (Smy2, Syh1), (iv) degradation of mRNA (endo- and exonucleases Ypl199c and Xrn1, respectively), (v) autophagy (Psp2, Vps30, Ykt6), and (vi) kinase signaling (Ste20). Additionally, they must be harmonized with translation initiation factors (eIF3, cap-binding protein Cdc33, eIF2A) and mRNA-binding/ribosome-charging proteins (Scp160, Sro9). The Rps/uS-BioID perspectives revealed substantial Asc1/RACK1-dependent <i>hr40S</i> configuration indicating a function of the β-propeller in context-specific spatial organization of this microenvironment. Toward resolving context-specific constellations, a Split-TurboID analysis emphasized the ubiquitin-associated factors Def1 and Lsm12 as neighbors of Bre5 at <i>hr40S</i>. These shuttling proteins indicate a common regulatory axis for the fate of polymerizing machineries for the biosynthesis of proteins in the cytoplasm and RNA/DNA in the nucleus. |
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| issn | 1661-6596 1422-0067 |
| language | English |
| last_indexed | 2024-03-10T06:01:21Z |
| publishDate | 2021-10-01 |
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| series | International Journal of Molecular Sciences |
| spelling | doaj.art-11c9f7cf9fb5463da80a24fddbe46e912023-11-22T20:55:45ZengMDPI AGInternational Journal of Molecular Sciences1661-65961422-00672021-10-0122211165310.3390/ijms222111653A Multi-Perspective Proximity View on the Dynamic Head Region of the Ribosomal 40S SubunitKerstin Schmitt0Alina-Andrea Kraft1Oliver Valerius2Department of Molecular Microbiology and Genetics, Institute of Microbiology and Genetics, Göttingen Center for Molecular Biosciences (GZMB), Georg-August-University Göttingen, 37077 Göttingen, GermanyDepartment of Molecular Microbiology and Genetics, Institute of Microbiology and Genetics, Göttingen Center for Molecular Biosciences (GZMB), Georg-August-University Göttingen, 37077 Göttingen, GermanyDepartment of Molecular Microbiology and Genetics, Institute of Microbiology and Genetics, Göttingen Center for Molecular Biosciences (GZMB), Georg-August-University Göttingen, 37077 Göttingen, GermanyA comparison of overlapping proximity captures at the head region of the ribosomal 40S subunit (<i>hr40S</i>) in <i>Saccharomyces cerevisiae</i> from four adjacent perspectives, namely Asc1/RACK1, Rps2/uS5, Rps3/uS3, and Rps20/uS10, corroborates dynamic co-localization of proteins that control activity and fate of both ribosomes and mRNA. Co-locating factors that associate with the <i>hr40S</i> are involved in (i) (de)ubiquitination of ribosomal proteins (Hel2, Bre5-Ubp3), (ii) clamping of inactive ribosomal subunits (Stm1), (iii) mRNA surveillance and vesicular transport (Smy2, Syh1), (iv) degradation of mRNA (endo- and exonucleases Ypl199c and Xrn1, respectively), (v) autophagy (Psp2, Vps30, Ykt6), and (vi) kinase signaling (Ste20). Additionally, they must be harmonized with translation initiation factors (eIF3, cap-binding protein Cdc33, eIF2A) and mRNA-binding/ribosome-charging proteins (Scp160, Sro9). The Rps/uS-BioID perspectives revealed substantial Asc1/RACK1-dependent <i>hr40S</i> configuration indicating a function of the β-propeller in context-specific spatial organization of this microenvironment. Toward resolving context-specific constellations, a Split-TurboID analysis emphasized the ubiquitin-associated factors Def1 and Lsm12 as neighbors of Bre5 at <i>hr40S</i>. These shuttling proteins indicate a common regulatory axis for the fate of polymerizing machineries for the biosynthesis of proteins in the cytoplasm and RNA/DNA in the nucleus.https://www.mdpi.com/1422-0067/22/21/11653biotin identification (BioID)Asc1/RACK1Rps2/uS5Rps3/uS3Rps20/uS10Rpl5/uL18 |
| spellingShingle | Kerstin Schmitt Alina-Andrea Kraft Oliver Valerius A Multi-Perspective Proximity View on the Dynamic Head Region of the Ribosomal 40S Subunit International Journal of Molecular Sciences biotin identification (BioID) Asc1/RACK1 Rps2/uS5 Rps3/uS3 Rps20/uS10 Rpl5/uL18 |
| title | A Multi-Perspective Proximity View on the Dynamic Head Region of the Ribosomal 40S Subunit |
| title_full | A Multi-Perspective Proximity View on the Dynamic Head Region of the Ribosomal 40S Subunit |
| title_fullStr | A Multi-Perspective Proximity View on the Dynamic Head Region of the Ribosomal 40S Subunit |
| title_full_unstemmed | A Multi-Perspective Proximity View on the Dynamic Head Region of the Ribosomal 40S Subunit |
| title_short | A Multi-Perspective Proximity View on the Dynamic Head Region of the Ribosomal 40S Subunit |
| title_sort | multi perspective proximity view on the dynamic head region of the ribosomal 40s subunit |
| topic | biotin identification (BioID) Asc1/RACK1 Rps2/uS5 Rps3/uS3 Rps20/uS10 Rpl5/uL18 |
| url | https://www.mdpi.com/1422-0067/22/21/11653 |
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