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第五种蛋白质亚基Ph1496p提高了来自嗜热栖热菌OT3的核糖核酸酶P活性的最适温度。

A fifth protein subunit Ph1496p elevates the optimum temperature for the ribonuclease P activity from Pyrococcus horikoshii OT3.

作者信息

Fukuhara Hideo, Kifusa Mayumi, Watanabe Mitsutoshi, Terada Atsushi, Honda Takashi, Numata Tomoyuki, Kakuta Yoshimitsu, Kimura Makoto

机构信息

Laboratory of Biochemistry, Department of Bioscience and Biotechnology, Faculty of Agriculture, Graduate School, Kyushu University, Hakozaki 6-10-1, Higashi-ku, Fukuoka 812-8581, Japan.

出版信息

Biochem Biophys Res Commun. 2006 May 12;343(3):956-64. doi: 10.1016/j.bbrc.2006.02.192. Epub 2006 Mar 15.


DOI:10.1016/j.bbrc.2006.02.192
PMID:16574071
Abstract

Ribonuclease P (RNase P) is a ribonucleoprotein complex involved in the processing of the 5' leader sequence of precursor tRNA. We previously found that the reconstituted particle (RP) composed of RNase P RNA and four proteins (Ph1481p, Ph1601p, Ph1771p, and Ph1877p) in the hyperthermophilic archaeon Pyrococcus horikoshii OT3 exhibited the RNase P activity, but had a lower optimal temperature (around at 55 degrees C), as compared with 70 degrees C of the authentic RNase P from P. horikoshii [Kouzuma et al., Biochem. Biophys. Res. Commun. 306 (2003) 666-673]. In the present study, we found that addition of a fifth protein Ph1496p, a putative ribosomal protein L7Ae, to RP specifically elevated the optimum temperature to about 70 degrees C comparable to that of the authentic RNase P. Characterization using gel shift assay and chemical probing localized Ph1496p binding sites on two stem-loop structures encompassing nucleotides A116-G201 and G229-C276 in P. horikoshii RNase P RNA. Moreover, the crystal structure of Ph1496p was determined at 2.0 A resolution by the molecular replacement method using ribosomal protein L7Ae from Haloarcula marismortui as a search model. Ph1496p comprises five alpha-helices and a four stranded beta-sheet. The beta-sheet is sandwiched by three helices (alpha1, alpha4, and alpha5) at one side and two helices (alpha2 and alpha3) at other side. The archaeal ribosomal protein L7Ae is known to be a triple functional protein, serving as a protein component in ribosome and ribonucleoprotein complexes, box C/D, and box H/ACA. Although we have at present no direct evidence that Ph1496p is a real protein component in the P. horikoshii RNase P, the present result may assign an RNase P protein to L7Ae as a fourth function.

摘要

核糖核酸酶P(RNase P)是一种核糖核蛋白复合体,参与前体tRNA 5'前导序列的加工。我们之前发现,由嗜热古菌火球菌OT3中的RNase P RNA和四种蛋白质(Ph1481p、Ph1601p、Ph1771p和Ph1877p)组成的重组颗粒(RP)具有RNase P活性,但与来自火球菌的天然RNase P的70℃相比,其最适温度较低(约为55℃)[Kouzuma等人,《生物化学与生物物理研究通讯》306(2003)666 - 673]。在本研究中,我们发现向RP中添加第五种蛋白质Ph1496p(一种假定的核糖体蛋白L7Ae)可将最适温度特异性提高到约70℃,与天然RNase P相当。使用凝胶迁移实验和化学探针进行的表征将Ph1496p的结合位点定位在火球菌RNase P RNA中包含核苷酸A116 - G201和G229 - C276的两个茎环结构上。此外,通过分子置换法,以嗜盐嗜碱菌的核糖体蛋白L7Ae为搜索模型,在2.0埃分辨率下测定了Ph1496p的晶体结构。Ph1496p由五个α螺旋和一个四链β折叠组成。β折叠一侧被三个螺旋(α1、α4和α5)夹在中间,另一侧被两个螺旋(α2和α3)夹在中间。已知古菌核糖体蛋白L7Ae是一种具有三重功能的蛋白质,作为核糖体和核糖核蛋白复合体、C/D盒以及H/ACA盒中的蛋白质成分。尽管目前我们没有直接证据表明Ph1496p是火球菌RNase P中的真正蛋白质成分,但目前的结果可能赋予L7Ae作为RNase P蛋白的第四种功能。

相似文献

[1]
A fifth protein subunit Ph1496p elevates the optimum temperature for the ribonuclease P activity from Pyrococcus horikoshii OT3.

Biochem Biophys Res Commun. 2006-5-12

[2]
Crystal structure of protein Ph1481p in complex with protein Ph1877p of archaeal RNase P from Pyrococcus horikoshii OT3: implication of dimer formation of the holoenzyme.

J Mol Biol. 2006-3-24

[3]
Crystal structure of the ribonuclease P protein Ph1877p from hyperthermophilic archaeon Pyrococcus horikoshii OT3.

Biochem Biophys Res Commun. 2004-7-2

[4]
Crystal structure of a ribonuclease P protein Ph1601p from Pyrococcus horikoshii OT3: an archaeal homologue of human nuclear ribonuclease P protein Rpp21.

Biochemistry. 2005-9-13

[5]
Protein-protein interactions in the subunits of ribonuclease P in the hyperthermophilic archaeon Pyrococcus horikoshii OT3.

Biosci Biotechnol Biochem. 2005-6

[6]
Characterization of the archaeal ribonuclease P proteins from Pyrococcus horikoshii OT3.

J Biochem. 2006-8

[7]
Crystal structure of archaeal ribonuclease P protein Ph1771p from Pyrococcus horikoshii OT3: an archaeal homolog of eukaryotic ribonuclease P protein Rpp29.

RNA. 2004-9

[8]
Extra-structural elements in the RNA recognition motif in archaeal Pop5 play a crucial role in the activation of RNase P RNA from Pyrococcus horikoshii OT3.

Biochem Biophys Res Commun. 2013-10-10

[9]
Crystal structure of the regulatory subunit of archaeal initiation factor 2B (aIF2B) from hyperthermophilic archaeon Pyrococcus horikoshii OT3: a proposed structure of the regulatory subcomplex of eukaryotic IF2B.

Biochem Biophys Res Commun. 2004-7-2

[10]
Structural modeling of RNase P RNA of the hyperthermophilic archaeon Pyrococcus horikoshii OT3.

Biochem Biophys Res Commun. 2011-9-24

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[2]
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RNA Biol. 2023-1

[3]
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Nucleic Acids Res. 2022-8-12

[4]
Purification, reconstitution, and mass analysis of archaeal RNase P, a multisubunit ribonucleoprotein enzyme.

Methods Enzymol. 2021

[5]
The many faces of RNA-based RNase P, an RNA-world relic.

Trends Biochem Sci. 2021-12

[6]
Protein cofactors and substrate influence Mg2+-dependent structural changes in the catalytic RNA of archaeal RNase P.

Nucleic Acids Res. 2021-9-20

[7]
Cryo-electron microscopy structure of an archaeal ribonuclease P holoenzyme.

Nat Commun. 2019-6-13

[8]
Crystal structures of the archaeal RNase P protein Rpp38 in complex with RNA fragments containing a K-turn motif.

Acta Crystallogr F Struct Biol Commun. 2018-1-1

[9]
A novel double kink-turn module in euryarchaeal RNase P RNAs.

Nucleic Acids Res. 2017-7-7

[10]
The Diversity of Ribonuclease P: Protein and RNA Catalysts with Analogous Biological Functions.

Biomolecules. 2016-5-13

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