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-Structure paper
タイトル | Assembly landscape for the bacterial large ribosomal subunit. |
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ジャーナル・号・ページ | Nat Commun, Vol. 14, Issue 1, Page 5220, Year 2023 |
掲載日 | 2023年8月26日 |
著者 | Kai Sheng / Ning Li / Jessica N Rabuck-Gibbons / Xiyu Dong / Dmitry Lyumkis / James R Williamson / |
PubMed 要旨 | Assembly of ribosomes in bacteria is highly efficient, taking ~2-3 min, but this makes the abundance of assembly intermediates very low, which is a challenge for mechanistic understanding. Genetic ...Assembly of ribosomes in bacteria is highly efficient, taking ~2-3 min, but this makes the abundance of assembly intermediates very low, which is a challenge for mechanistic understanding. Genetic perturbations of the assembly process create bottlenecks where intermediates accumulate, facilitating structural characterization. We use cryo-electron microscopy, with iterative subclassification to identify intermediates in the assembly of the 50S ribosomal subunit from E. coli. The analysis of the ensemble of intermediates that spans the entire biogenesis pathway for the 50 S subunit was facilitated by a dimensionality reduction and cluster picking approach using PCA-UMAP-HDBSCAN. The identity of the cooperative folding units in the RNA with associated proteins is revealed, and the hierarchy of these units reveals a complete assembly map for all RNA and protein components. The assembly generally proceeds co-transcriptionally, with some flexibility in the landscape to ensure efficiency for this central cellular process under a variety of growth conditions. |
リンク | Nat Commun / PubMed:37633970 / PubMed Central |
手法 | EM (単粒子) |
解像度 | 5.41 - 9.27 Å |
構造データ | EMDB-40309: E. coli 50S assembly intermediate from bL17-depletion strain, class: rl17-B-b1 EMDB-40311: E. coli 50S intermediate, bL17-depletion strain, class: rl17-B-b2 EMDB-40312: E. coli 50S intermediate, bL17-depletion strain, class: rl17-B-b3 EMDB-40313: E. coli 50S intermediate, bL17-depletion strain, class: rl17-B-b3 EMDB-40314: E. coli 50S intermediate, bL17-depletion strain, class: rl17-C-b1 EMDB-40315: E. coli 50S intermediate, bL17-depletion strain, class: rl17-C-b2 EMDB-40316: E. coli 50S intermediate, srmB deletion strain, class: srmb-B-a1 EMDB-40317: E. coli 50S intermediate, bL17-depletion strain, class: rl17-C-b3 EMDB-40318: E. coli 50S intermediate, srmB deletion strain, class: srmb-B-a2 EMDB-40319: E. coli 50S intermediate, bL17-depletion strain, class: rl17-C-b4 EMDB-40320: E. coli 50S intermediate, srmB deletion strain, class: srmb-C-a1 EMDB-40321: E. coli 50S intermediate, bL17-depletion strain, class: rl17-C-b5 EMDB-40322: E. coli 50S intermediate, srmB deletion strain, class: srmb-C-a2 EMDB-40323: E. coli 50S intermediate, bL17-depletion strain, class: rl17-C-b6 EMDB-40324: E. coli 50S intermediate, srmB deletion strain, class: srmb-C-a3 EMDB-40325: E. coli 50S intermediate, srmB deletion strain, class: srmb-C-a4 EMDB-40327: E. coli 50S intermediate, bL17-depletion strain, class: rl17-D-a1 EMDB-40328: E. coli 50S intermediate, srmB deletion strain, class: srmb-C-a5 EMDB-40329: E. coli 50S intermediate, bL17-depletion strain, class: rl17-D-a2 EMDB-40330: E. coli 50S intermediate, srmB deletion strain, class: srmb-E-a1 EMDB-40331: E. coli 50S intermediate, bL17-depletion strain, class: rl17-D-a3 EMDB-40332: E. coli 50S intermediate, srmB deletion strain, class: srmb-E-a2 EMDB-40333: E. coli 50S intermediate, bL17-depletion strain, class: rl17-D-b1 EMDB-40511: E. coli 50S intermediate, bL17-depletion strain, class: rl17-B-b4 EMDB-40512: E. coli 50S intermediate, bL17-depletion strain, class: rl17-D-b2 EMDB-40513: E. coli 50S intermediate, srmB deletion strain, class: srmb-E-a3 EMDB-40514: E. coli 50S intermediate, bL17-depletion strain, class: rl17-D-b3 EMDB-40515: E. coli 50S intermediate, srmB deletion strain, class: srmb-G1 EMDB-40516: E. coli 50S intermediate, bL17-depletion strain, class: rl17-D-b4 EMDB-40517: E. coli 50S intermediate, srmB deletion strain, class: dead-B-a1 EMDB-40518: E. coli 50S intermediate, bL17-depletion strain, class: rl17-E-a1 EMDB-40519: E. coli 50S intermediate, srmB deletion strain, class: dead-B-a2 EMDB-40520: E. coli 50S intermediate, bL17-depletion strain, class: rl17-E-a2 EMDB-40521: E. coli 50S intermediate, srmB deletion strain, class: dead-B-a3 EMDB-40523: E. coli 50S intermediate, bL17-depletion strain, class: rl17-E-a3 EMDB-40524: E. coli 50S intermediate, deaD deletion strain, class: dead-B-a4 EMDB-40525: E. coli 50S intermediate, bL17-depletion strain, class: rl17-E-a4 EMDB-40526: E. coli 50S intermediate, deaD deletion strain, class: dead-B-a5 EMDB-40527: E. coli 50S intermediate, bL17-depletion strain, class: rl17-E-a5 EMDB-40528: E. coli 50S intermediate, deaD deletion strain, class: dead-B-a6 EMDB-40529: E. coli 50S intermediate, bL17-depletion strain, class: rl17-E-b1 EMDB-40530: E. coli 50S intermediate, deaD deletion strain, class: dead-B-b1 EMDB-40531: E. coli 50S intermediate, bL17-depletion strain, class: rl17-E-b10 EMDB-40532: E. coli 50S intermediate, deaD deletion strain, class: dead-C-a1 EMDB-40533: E. coli 50S intermediate, bL17-depletion strain, class: rl17-E-b2 EMDB-40534: E. coli 50S intermediate, deaD deletion strain, class: dead-C-a2 EMDB-40535: E. coli 50S intermediate, bL17-depletion strain, class: rl17-E-b3 EMDB-40536: E. coli 50S intermediate, deaD deletion strain, class: dead-C-a3 EMDB-40537: E. coli 50S intermediate, bL17-depletion strain, class: rl17-E-b4 EMDB-40538: E. coli 50S intermediate, deaD deletion strain, class: dead-C-a4 EMDB-40539: E. coli 50S intermediate, bL17-depletion strain, class: rl17-E-b5 EMDB-40540: E. coli 50S intermediate, deaD deletion strain, class: dead-C-a5 EMDB-40541: E. coli 50S intermediate, bL17-depletion strain, class: rl17-E-b6 EMDB-40542: E. coli 50S intermediate, deaD deletion strain, class: dead-C-b1 EMDB-40543: E. coli 50S intermediate, bL17-depletion strain, class: rl17-E-b7 EMDB-40544: E. coli 50S intermediate, deaD deletion strain, class: dead-C-b2 EMDB-40545: E. coli 50S intermediate, bL17-depletion strain, class: rl17-E-b8 EMDB-40546: E. coli 50S intermediate, deaD deletion strain, class: dead-E-a1 EMDB-40547: E. coli 50S intermediate, bL17-depletion strain, class: rl17-E-b9 EMDB-40548: E. coli 50S intermediate, deaD deletion strain, class: dead-G1 EMDB-40549: E. coli 50S intermediate, deaD deletion strain, class: dead-preB2 EMDB-40550: E. coli 50S intermediate, deaD deletion strain, class: dead-G2 EMDB-40551: E. coli 50S intermediate, deaD deletion strain, class: dead-preB1 EMDB-40552: E. coli 50S intermediate, deaD deletion strain, class: dead-G3 EMDB-40555: E. coli 50S intermediate, deaD deletion strain, class: dead-G4 |
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