精确测定大肠杆菌50 S核糖体亚基中的RNA-蛋白质接触位点。
Precise determination of RNA-protein contact sites in the 50 S ribosomal subunit of Escherichia coli.
作者信息
Thiede B, Urlaub H, Neubauer H, Grelle G, Wittmann-Liebold B
机构信息
Max-Delbrück-Centrum für Molekulare Medizin, Robert-Rössle-Strasse 10, D-13125 Berlin, Germany.
出版信息
Biochem J. 1998 Aug 15;334 ( Pt 1)(Pt 1):39-42. doi: 10.1042/bj3340039.
Abstract
RNA-protein cross-linked complexes were isolated and purified to obtain precise data about RNA-protein contact sites in the 50 S ribosomal subunit of Escherichia coli. N-terminal microsequencing and matrix-assisted laser desorption ionization MS were used to identify the cross-linking sites at the amino acid and nucleotide levels. In this manner the following contact sites of five ribosomal proteins with the 23 S rRNA were established: Lys-67 of L2 to U-1963, Tyr-35 of L4 to U-615, Lys-97 of L21 to U-546, Lys-49 of L23 to U-139 or C-140 and Lys-71 and Lys-74 of L27 to U-2334.
摘要
分离并纯化RNA-蛋白质交联复合物，以获取有关大肠杆菌50S核糖体亚基中RNA-蛋白质接触位点的精确数据。使用N端微量测序和基质辅助激光解吸电离质谱在氨基酸和核苷酸水平鉴定交联位点。通过这种方式，确定了五种核糖体蛋白与23S rRNA的以下接触位点：L2的Lys-67与U-1963、L4的Tyr-35与U-615、L21的Lys-97与U-546、L23的Lys-49与U-139或C-140以及L27的Lys-71和Lys-74与U-2334。
相似文献
1
Precise determination of RNA-protein contact sites in the 50 S ribosomal subunit of Escherichia coli.精确测定大肠杆菌50 S核糖体亚基中的RNA-蛋白质接触位点。
Biochem J. 1998 Aug 15;334 ( Pt 1)(Pt 1):39-42. doi: 10.1042/bj3340039.
2
Identification and sequence analysis of contact sites between ribosomal proteins and rRNA in Escherichia coli 30 S subunits by a new approach using matrix-assisted laser desorption/ionization-mass spectrometry combined with N-terminal microsequencing.利用基质辅助激光解吸/电离质谱联用N端微量测序的新方法对大肠杆菌30S亚基中核糖体蛋白与rRNA之间的接触位点进行鉴定和序列分析。
J Biol Chem. 1997 Jun 6;272(23):14547-55. doi: 10.1074/jbc.272.23.14547.
3
The 3D arrangement of the 23 S and 5 S rRNA in the Escherichia coli 50 S ribosomal subunit based on a cryo-electron microscopic reconstruction at 7.5 A resolution.基于7.5埃分辨率的冷冻电子显微镜重建，大肠杆菌50S核糖体亚基中23S和5S rRNA的三维排列。
J Mol Biol. 2000 Apr 21;298(1):35-59. doi: 10.1006/jmbi.2000.3635.
4
Protein-rRNA binding features and their structural and functional implications in ribosomes as determined by cross-linking studies.通过交联研究确定的核糖体中蛋白质-rRNA结合特征及其结构和功能意义。
EMBO J. 1995 Sep 15;14(18):4578-88. doi: 10.1002/j.1460-2075.1995.tb00137.x.
5
Localization of a series of RNA-protein cross-link sites in the 23S and 5S ribosomal RNA from Escherichia coli, induced by treatment of 50S subunits with three different bifunctional reagents.
Nucleic Acids Res. 1990 Dec 11;18(23):6755-60. doi: 10.1093/nar/18.23.6755.
6
Selecting rRNA binding sites for the ribosomal proteins L4 and L6 from randomly fragmented rRNA: application of a method called SERF.从随机片段化的核糖体RNA中选择核糖体蛋白L4和L6的rRNA结合位点：一种称为SERF的方法的应用
Proc Natl Acad Sci U S A. 2000 Apr 25;97(9):4597-602. doi: 10.1073/pnas.090009297.
7
Functional genetic selection of Helix 66 in Escherichia coli 23S rRNA identified the eukaryotic-binding sequence for ribosomal protein L2.对大肠杆菌23S rRNA中66螺旋进行功能基因选择，确定了核糖体蛋白L2的真核生物结合序列。
Nucleic Acids Res. 2007;35(12):4018-29. doi: 10.1093/nar/gkm356. Epub 2007 Jun 6.
8
The use of 2-iminothiolane as an RNA-protein cross-linking agent in Escherichia coli ribosomes, and the localisation on 23S RNA of sites cross-linked to proteins L4, L6, L21, L23, L27 and L29.2-亚氨基硫杂环戊烷作为RNA-蛋白质交联剂在大肠杆菌核糖体中的应用，以及与蛋白质L4、L6、L21、L23、L27和L29交联位点在23S RNA上的定位。
Nucleic Acids Res. 1981 Sep 11;9(17):4285-302. doi: 10.1093/nar/9.17.4285.
9
RNA-protein cross-linking in Escherichia coli 50S ribosomal subunits; determination of sites on 23S RNA that are cross-linked to proteins L2, L4, L24 and L27 by treatment with 2-iminothiolane.大肠杆菌50S核糖体亚基中的RNA-蛋白质交联；通过用2-亚氨基硫杂环戊烷处理确定23S RNA上与蛋白质L2、L4、L24和L27交联的位点。
Nucleic Acids Res. 1988 Feb 11;16(3):815-32. doi: 10.1093/nar/16.3.815.
10
Probing the rRNA environment of ribosomal protein S5 across the subunit interface and inside the 30 S subunit using tethered Fe(II).利用 tethered Fe(II) 探究核糖体蛋白 S5 在亚基界面及 30 S 亚基内部的 rRNA 环境。
J Mol Biol. 1999 Feb 19;286(2):355-64. doi: 10.1006/jmbi.1998.2483.
引用本文的文献
1
Elucidating the higher-order structure of biopolymers by structural probing and mass spectrometry: MS3D.通过结构探测和质谱法阐明生物聚合物的高级结构：MS3D。
J Mass Spectrom. 2010 Aug;45(8):841-60. doi: 10.1002/jms.1762.
2
A role for the MS analysis of nucleic acids in the post-genomics age.在后基因组时代，核酸的 MS 分析的作用。
J Am Soc Mass Spectrom. 2010 Jan;21(1):1-13. doi: 10.1016/j.jasms.2009.09.006. Epub 2009 Sep 17.
3
Protein folding by domain V of Escherichia coli 23S rRNA: specificity of RNA-protein interactions.大肠杆菌23S rRNA结构域V介导的蛋白质折叠：RNA-蛋白质相互作用的特异性
J Bacteriol. 2008 May;190(9):3344-52. doi: 10.1128/JB.01800-07. Epub 2008 Feb 29.
4
Functional conservation between structurally diverse ribosomal proteins from Drosophila melanogaster and Saccharomyces cerevisiae: fly L23a can substitute for yeast L25 in ribosome assembly and function.黑腹果蝇和酿酒酵母结构多样的核糖体蛋白之间的功能保守性：果蝇L23a可在核糖体组装和功能中替代酵母L25
Nucleic Acids Res. 2007;35(13):4503-14. doi: 10.1093/nar/gkm428. Epub 2007 Jun 21.
5
Developing limited proteolysis and mass spectrometry for the characterization of ribosome topography.开发有限蛋白酶解和质谱技术用于核糖体拓扑结构的表征。
J Am Soc Mass Spectrom. 2007 Jul;18(7):1304-17. doi: 10.1016/j.jasms.2007.03.028. Epub 2007 Apr 6.
6
Crystal structure of ribosomal protein L27 from Thermus thermophilus HB8.嗜热栖热菌HB8核糖体蛋白L27的晶体结构
Protein Sci. 2004 Oct;13(10):2806-10. doi: 10.1110/ps.04864904. Epub 2004 Aug 31.
7
Mining biochemical information: lessons taught by the ribosome.挖掘生化信息：核糖体带来的启示
RNA. 2002 Mar;8(3):279-89. doi: 10.1017/s135583820202407x.
8
Establishment of Arabidopsis thaliana ribosomal protein RPL23A-1 as a functional homologue of Saccharomyces cerevisiae ribosomal protein L25.拟南芥核糖体蛋白RPL23A-1作为酿酒酵母核糖体蛋白L25功能同源物的确立。
Plant Mol Biol. 2001 Aug;46(6):673-82. doi: 10.1023/a:1011612329398.
9
Selecting rRNA binding sites for the ribosomal proteins L4 and L6 from randomly fragmented rRNA: application of a method called SERF.从随机片段化的核糖体RNA中选择核糖体蛋白L4和L6的rRNA结合位点：一种称为SERF的方法的应用
Proc Natl Acad Sci U S A. 2000 Apr 25;97(9):4597-602. doi: 10.1073/pnas.090009297.
10
Crystal structure of ribosomal protein L4 shows RNA-binding sites for ribosome incorporation and feedback control of the S10 operon.核糖体蛋白L4的晶体结构显示了核糖体掺入的RNA结合位点以及S10操纵子的反馈控制。
EMBO J. 2000 Mar 1;19(5):807-18. doi: 10.1093/emboj/19.5.807.
本文引用的文献
1
Functional implications of ribosomal protein L2 in protein biosynthesis as shown by in vivo replacement studies.体内置换研究显示核糖体蛋白L2在蛋白质生物合成中的功能意义。
Biochem J. 1998 Apr 15;331 ( Pt 2)(Pt 2):423-30. doi: 10.1042/bj3310423.
2
Ribosomal protein S7: a new RNA-binding motif with structural similarities to a DNA architectural factor.核糖体蛋白S7：一种与DNA结构因子具有结构相似性的新型RNA结合基序。
Structure. 1997 Sep 15;5(9):1199-208. doi: 10.1016/s0969-2126(97)00270-0.
3
The structure of ribosomal protein S7 at 1.9 A resolution reveals a beta-hairpin motif that binds double-stranded nucleic acids.核糖体蛋白S7在1.9埃分辨率下的结构揭示了一个结合双链核酸的β-发夹基序。
Structure. 1997 Sep 15;5(9):1187-98. doi: 10.1016/s0969-2126(97)00269-4.
4
RNA structure comes of age.
Cell. 1997 Sep 5;90(5):833-40. doi: 10.1016/s0092-8674(00)80348-7.
5
A new model for the three-dimensional folding of Escherichia coli 16 S ribosomal RNA. II. The RNA-protein interaction data.大肠杆菌16S核糖体RNA三维折叠的新模型。II. RNA-蛋白质相互作用数据。
J Mol Biol. 1997 Aug 29;271(4):545-65. doi: 10.1006/jmbi.1997.1211.
6
A new model for the three-dimensional folding of Escherichia coli 16 S ribosomal RNA. I. Fitting the RNA to a 3D electron microscopic map at 20 A.大肠杆菌16S核糖体RNA三维折叠的新模型。I. 将RNA与20埃分辨率的三维电子显微镜图谱拟合。
J Mol Biol. 1997 Aug 29;271(4):524-44. doi: 10.1006/jmbi.1997.1210.
7
Ribosomes and translation.核糖体与翻译
Annu Rev Biochem. 1997;66:679-716. doi: 10.1146/annurev.biochem.66.1.679.
8
Recognition of a transmembrane domain: another role for the ribosome?
Cell. 1997 Jul 11;90(1):5-8. doi: 10.1016/s0092-8674(00)80307-4.
9
RNA-binding proteins as regulators of gene expression.作为基因表达调节因子的RNA结合蛋白。
Curr Opin Genet Dev. 1997 Jun;7(3):345-53. doi: 10.1016/s0959-437x(97)80148-7.
10
Identification and sequence analysis of contact sites between ribosomal proteins and rRNA in Escherichia coli 30 S subunits by a new approach using matrix-assisted laser desorption/ionization-mass spectrometry combined with N-terminal microsequencing.利用基质辅助激光解吸/电离质谱联用N端微量测序的新方法对大肠杆菌30S亚基中核糖体蛋白与rRNA之间的接触位点进行鉴定和序列分析。
J Biol Chem. 1997 Jun 6;272(23):14547-55. doi: 10.1074/jbc.272.23.14547.
Zotero 插件