EMDB/PDB/SASBDBから引用されている文献のデータベース

キーワード
構造解析手法	All X線回折 NMR 電子顕微鏡小角散乱中性子線回折線維回折粉末回折赤外分光 EPR FRET 理論モデルハイブリッド
著者・登録者
ジャーナル
IF	>30 >20 >10 >5 all

タイトル	Protein bL38 facilitates incorporation of uL6 during assembly of the 50S subunit in Flavobacterium johnsoniae.
ジャーナル・号・ページ	Nucleic Acids Res, Vol. 53, Issue 4, Year 2025
掲載日	2025年2月8日
著者	Md Siddik Alom / Dominic Arpin / Haojun Zhu / Brenna N Hay / Leonard J Foster / Joaquin Ortega / Kurt Fredrick /
PubMed 要旨	Previous studies of the 70S ribosome from Flavobacterium johnsoniae revealed a novel ribosomal protein, bL38, which interacts with uL6 on the 50S subunit. This 5.6 kDa protein is conserved across the ...Previous studies of the 70S ribosome from Flavobacterium johnsoniae revealed a novel ribosomal protein, bL38, which interacts with uL6 on the 50S subunit. This 5.6 kDa protein is conserved across the Bacteroidia and encoded downstream of bL28 and bL33 in a three-gene operon. Here, we show that bL38 is critical for the growth of F. johnsoniae, and depletion of bL38 leads to accumulation of immature 50S particles, which lack uL6 and retain precursor rRNA sequences. Cryo-EM analysis of these particles reveals several putative assembly intermediates, all showing an absence of electron density for uL6 and the entire uL12 stalk region and additional densities corresponding to the unprocessed ends of the pre-23S rRNA. Extra copies of the uL6 gene can rescue the phenotypes caused by bL38 depletion, suggesting that bL38 facilitates uL6 incorporation during 50S subunit biogenesis. Cryo-EM analysis of 50S particles from this rescued strain reveals nearly twice as many intermediates, suggesting a broader and more robust assembly landscape. Differential scanning fluorimetry shows that uL6 of F. johnsoniae is intrinsically unstable, and bL38 increases the melting temperature of uL6 by 12°C. Collectively, these data suggest that bL38 binds and stabilizes uL6, thereby promoting 50S biogenesis in the Bacteroidia.
リンク	Nucleic Acids Res / PubMed:39997215 / PubMed Central
手法	EM (単粒子)
解像度	2.6 - 4.2 Å
構造データ	EMDB-43920: 50S Assembly intermediate from SA22 strain with bL38 depleted uL6 over expression. Class 1 手法: EM (単粒子) / 解像度: 3.2 Å EMDB-43922: 50S Assembly intermediate from SA22 strain with bL38 depleted uL6 over expression. Class 2 手法: EM (単粒子) / 解像度: 3.1 Å EMDB-43933: 50S Assembly intermediate from SA22 strain with bL38 depleted uL6 over expression. Class 3 手法: EM (単粒子) / 解像度: 3.0 Å EMDB-43934: 50S Assembly intermediate from SA22 strain with bL38 depleted uL6 over expression. Class 4 手法: EM (単粒子) / 解像度: 3.1 Å EMDB-43936: 50S Assembly intermediate from SA22 strain with bL38 depleted uL6 over expression. Class 5 手法: EM (単粒子) / 解像度: 3.2 Å EMDB-43937: 50S Assembly intermediate from SA22 strain with bL38 depleted uL6 over expression. Class 6 手法: EM (単粒子) / 解像度: 3.0 Å EMDB-43938: 50S Assembly intermediate from SA22 strain with bL38 depleted uL6 over expression. Class 7 手法: EM (単粒子) / 解像度: 2.9 Å EMDB-43939: 50S Assembly intermediate from SA22 strain with bL38 depleted uL6 over expression. Class 8 手法: EM (単粒子) / 解像度: 3.1 Å EMDB-43940: 50S Assembly intermediate from SA22 strain with bL38 depleted uL6 over expression. Class 9 手法: EM (単粒子) / 解像度: 3.3 Å EMDB-43941: 50S Assembly intermediate from SA22 strain with bL38 depleted uL6 over expression. Class 10 手法: EM (単粒子) / 解像度: 3.0 Å EMDB-43942: 50S Assembly intermediate from SA22 strain with bL38 depleted uL6 over expression. Class 11 手法: EM (単粒子) / 解像度: 4.0 Å EMDB-43943: 50S Assembly intermediate from SA22 strain with bL38 depleted uL6 over expression. Class M 手法: EM (単粒子) / 解像度: 2.7 Å EMDB-43944: 50S Assembly intermediate from SA08 strain with bL38 depletion. Class 1 手法: EM (単粒子) / 解像度: 3.5 Å EMDB-43945: 50S Assembly intermediate from SA08 strain with bL38 depletion. Class 2 手法: EM (単粒子) / 解像度: 2.7 Å EMDB-43946: 50S Assembly intermediate from SA08 strain with bL38 depletion. Class 3 手法: EM (単粒子) / 解像度: 2.7 Å EMDB-43947: 50S Assembly intermediate from SA08 strain with bL38 depletion. Class 4 手法: EM (単粒子) / 解像度: 2.8 Å EMDB-43948: 50S Assembly intermediate from SA08 strain with bL38 depletion. Class 5 手法: EM (単粒子) / 解像度: 2.9 Å EMDB-43949: 50S Assembly intermediate from SA08 strain with bL38 depletion. Class 6 手法: EM (単粒子) / 解像度: 2.6 Å EMDB-43950: 50S Assembly intermediate from SA08 strain with bL38 depletion. Class M 手法: EM (単粒子) / 解像度: 2.8 Å EMDB-43951: 70S ribosomes from SA22 strain assembled under bL38 depletion uL6 overexpression. Class 1 手法: EM (単粒子) / 解像度: 3.0 Å EMDB-43952: 70S ribosomes from SA22 strain assembled under bL38 depletion uL6 overexpression. Class 2 手法: EM (単粒子) / 解像度: 3.0 Å EMDB-43953: 70S ribosomes from SA22 strain assembled under bL38 depletion uL6 overexpression. Class 3 手法: EM (単粒子) / 解像度: 3.3 Å EMDB-43954: 70S ribosomes from SA22 strain assembled under bL38 depletion uL6 overexpression. Class 4 手法: EM (単粒子) / 解像度: 4.2 Å EMDB-43955: 70S ribosomes from polysomes from SA22 strain assembled under bL38 depletion uL6 overexpression. Class 1 手法: EM (単粒子) / 解像度: 3.1 Å EMDB-43956: 70S ribosomes from polysomes from SA22 strain assembled under bL38 depletion uL6 overexpression. Class 2 手法: EM (単粒子) / 解像度: 2.9 Å EMDB-43957: 70S ribosomes from polysomes from SA22 strain assembled under bL38 depletion uL6 overexpression. Class 3 手法: EM (単粒子) / 解像度: 3.2 Å EMDB-43958: 70S ribosomes from polysomes from SA22 strain assembled under bL38 depletion uL6 overexpression. Class 4 手法: EM (単粒子) / 解像度: 3.2 Å EMDB-43959: 70S ribosomes from polysomes from SA22 strain assembled under bL38 depletion uL6 overexpression. Class 5 手法: EM (単粒子) / 解像度: 3.3 Å
由来	Flavobacterium johnsoniae (バクテリア)