YbxF，一种与枯草芽孢杆菌指数生长期核糖体相关的蛋白质。
YbxF, a protein associated with exponential-phase ribosomes in Bacillus subtilis.
作者信息
Sojka Ludĕk, Fucík Vladimír, Krásný Libor, Barvík Ivan, Jonák Jirí
机构信息
Institute of Molecular Genetics ASCR, Vídenská 1083, 142 20 Prague 4, Czech Republic.
出版信息
J Bacteriol. 2007 Jul;189(13):4809-14. doi: 10.1128/JB.01786-06. Epub 2007 Apr 27.
Abstract
The ybxF gene is a member of the streptomycin operon in a wide range of gram-positive bacteria. In Bacillus subtilis, it codes for a small basic protein (82 amino acids, pI 9.51) of unknown function. We demonstrate that, in B. subtilis, YbxF localizes to the ribosome, primarily to the 50S subunit, with dependence on growth phase. Based on three-dimensional structures of YbxF generated by homology modeling, we identified helix 2 as important for the interaction with the ribosome. Subsequent mutational analysis of helix 2 revealed Lys24 as crucial for the interaction. Neither the B. subtilis ybxF gene nor its paralogue, the ymxC gene, is essential, as shown by probing DeltaybxF, DeltaymxC, or DeltaybxF DeltaymxC double deletion strains in several functional assays.
摘要
ybxF基因是多种革兰氏阳性细菌中链霉素操纵子的一个成员。在枯草芽孢杆菌中，它编码一种功能未知的小碱性蛋白（82个氨基酸，pI 9.51）。我们证明，在枯草芽孢杆菌中，YbxF定位于核糖体，主要定位于50S亚基，且依赖于生长阶段。基于同源建模生成的YbxF三维结构，我们确定螺旋2对于与核糖体的相互作用很重要。随后对螺旋2的突变分析表明赖氨酸24对于这种相互作用至关重要。在几种功能测定中对ΔybxF、ΔymxC或ΔybxF ΔymxC双缺失菌株进行检测，结果表明枯草芽孢杆菌的ybxF基因及其旁系同源基因ymxC都不是必需的。
相似文献
1
YbxF, a protein associated with exponential-phase ribosomes in Bacillus subtilis.
J Bacteriol. 2007 Jul;189(13):4809-14. doi: 10.1128/JB.01786-06. Epub 2007 Apr 27.
2
Towards an elucidation of the roles of the ribosome during different growth phases in Bacillus subtilis.
Biosci Biotechnol Biochem. 2010;74(3):451-61. doi: 10.1271/bbb.90859. Epub 2010 Mar 7.
3
Interaction between Bacillus subtilis YsxC and ribosomes (or rRNAs).
FEBS Lett. 2015 Apr 13;589(9):1026-32. doi: 10.1016/j.febslet.2015.03.001. Epub 2015 Mar 13.
4
Specific polar localization of ribosomes in Bacillus subtilis depends on active transcription.
EMBO Rep. 2001 Aug;2(8):685-9. doi: 10.1093/embo-reports/kve160. Epub 2001 Jul 19.
5
Localization and interactions of teichoic acid synthetic enzymes in Bacillus subtilis.
J Bacteriol. 2008 Mar;190(5):1812-21. doi: 10.1128/JB.01394-07. Epub 2007 Dec 21.
6
The Bacillus subtilis GTP binding protein obg and regulators of the sigma(B) stress response transcription factor cofractionate with ribosomes.
J Bacteriol. 2000 May;182(10):2771-7. doi: 10.1128/JB.182.10.2771-2777.2000.
7
Functional analysis of 11 putative essential genes in Bacillus subtilis.
Microbiology (Reading). 2006 Oct;152(Pt 10):2895-2907. doi: 10.1099/mic.0.29152-0.
8
Evolution of Ribosomal Protein S14 Demonstrated by the Reconstruction of Chimeric Ribosomes in Bacillus subtilis.
J Bacteriol. 2021 Apr 21;203(10). doi: 10.1128/JB.00599-20.
9
CsrA of Bacillus subtilis regulates translation initiation of the gene encoding the flagellin protein (hag) by blocking ribosome binding.
Mol Microbiol. 2007 Jun;64(6):1605-20. doi: 10.1111/j.1365-2958.2007.05765.x.
10
Zinc is a key factor in controlling alternation of two types of L31 protein in the Bacillus subtilis ribosome.
Mol Microbiol. 2004 Apr;52(1):273-83. doi: 10.1111/j.1365-2958.2003.03972.x.
引用本文的文献
1
Glioma Cells Acquire Stem-like Characters by Extrinsic Ribosome Stimuli.
Cells. 2021 Nov 1;10(11):2970. doi: 10.3390/cells10112970.
2
Ribosome induces transdifferentiation of A549 and H-111-TC cancer cell lines.
Biochem Biophys Rep. 2021 Feb 12;26:100946. doi: 10.1016/j.bbrep.2021.100946. eCollection 2021 Jul.
3
Ribosome Incorporation into Somatic Cells Promotes Lineage Transdifferentiation towards Multipotency.
Sci Rep. 2018 Jan 26;8(1):1634. doi: 10.1038/s41598-018-20057-1.
4
RIP-Seq Suggests Translational Regulation by L7Ae in .
mBio. 2017 Aug 1;8(4):e00730-17. doi: 10.1128/mBio.00730-17.
5
Polar Fixation of Plasmids during Recombinant Protein Production in Bacillus megaterium Results in Population Heterogeneity.
Appl Environ Microbiol. 2015 Sep 1;81(17):5976-86. doi: 10.1128/AEM.00807-15. Epub 2015 Jun 26.
6
The molecular recognition of kink-turn structure by the L7Ae class of proteins.
RNA. 2013 Dec;19(12):1703-10. doi: 10.1261/rna.041517.113. Epub 2013 Oct 22.
7
YbxF and YlxQ are bacterial homologs of L7Ae and bind K-turns but not K-loops.
RNA. 2012 Apr;18(4):759-70. doi: 10.1261/rna.031518.111. Epub 2012 Feb 21.
8
Single-molecule investigations of the stringent response machinery in living bacterial cells.
Proc Natl Acad Sci U S A. 2011 Aug 2;108(31):E365-73. doi: 10.1073/pnas.1102255108. Epub 2011 Jul 5.
9
The origin of a derived superkingdom: how a gram-positive bacterium crossed the desert to become an archaeon.
Biol Direct. 2011 Feb 28;6:16. doi: 10.1186/1745-6150-6-16.
本文引用的文献
1
Functional analysis of 11 putative essential genes in Bacillus subtilis.
Microbiology (Reading). 2006 Oct;152(Pt 10):2895-2907. doi: 10.1099/mic.0.29152-0.
2
REQUIREMENTS FOR TRANSFORMATION IN BACILLUS SUBTILIS.
J Bacteriol. 1961 May;81(5):741-6. doi: 10.1128/jb.81.5.741-746.1961.
3
Localization and dynamic behavior of ribosomal protein L30e.
Nat Struct Mol Biol. 2005 May;12(5):467-8. doi: 10.1038/nsmb933. Epub 2005 May 1.
4
The roles of ribosomal proteins in the structure assembly, and evolution of the large ribosomal subunit.
J Mol Biol. 2004 Jun 25;340(1):141-77. doi: 10.1016/j.jmb.2004.03.076.
5
Zinc is a key factor in controlling alternation of two types of L31 protein in the Bacillus subtilis ribosome.
Mol Microbiol. 2004 Apr;52(1):273-83. doi: 10.1111/j.1365-2958.2003.03972.x.
6
Purification, crystallization and preliminary X-ray diffraction data of L7Ae sRNP core protein from Pyrococcus abyssii.
Acta Crystallogr D Biol Crystallogr. 2004 Jan;60(Pt 1):122-4. doi: 10.1107/s090744490302239x. Epub 2003 Dec 18.
7
Inherent protein structural flexibility at the RNA-binding interface of L30e.
J Mol Biol. 2003 Feb 28;326(4):999-1004. doi: 10.1016/s0022-2836(02)01476-6.
8
Specific polar localization of ribosomes in Bacillus subtilis depends on active transcription.
EMBO Rep. 2001 Aug;2(8):685-9. doi: 10.1093/embo-reports/kve160. Epub 2001 Jul 19.
9
Cloning and characterization of the str operon and elongation factor Tu expression in Bacillus stearothermophilus.
J Bacteriol. 2000 Nov;182(21):6114-22. doi: 10.1128/JB.182.21.6114-6122.2000.
10
The complete atomic structure of the large ribosomal subunit at 2.4 A resolution.
Science. 2000 Aug 11;289(5481):905-20. doi: 10.1126/science.289.5481.905.
Zotero 插件