Ribozyme-catalyzed trimming reactions and the direct role of Mg 2+ ions in the cleavage of RNA
نویسندگان
چکیده
Masaki Warashina1,2,4, Tomoko Kuwabara1,2,4, Yuka Nakamatsu1,2,4, Masayuki Sano1,2,4, Atsushi Shibata1,2,4, Hideki Shizuku1,2,4, Hideyuki Takeda1,2,4, Ryuji Utsunomiya1,2,4, Jing-Min Zhou1,2,4, Tadafumi Uchimaru3, Jun Ohkawa1,2,4 and Kazunari Taira1,2,4,* 1National Institute for Advanced Interdisciplinary Research, 1-1-4 Higashi, Tsukuba Science City 305-8562, Japan; 2National Institute of Bioscience and Human Technology, 1-1 Higashi, Tsukuba Science City 305-8566, Japan; 3National Institute of Materials and Chemical Research, 1-1 Higashi, Tsukuba Science City 305-8565, Japan; and 4Institute of Applied Biochemistry, University of Tsukuba, Tennoudai 1-1-1, Tsukuba Science City 305-8572, Japan. ______________________________________________________________________________________
منابع مشابه
Self-cleavage activity of the genomic HDV ribozyme in the presence of various divalent metal ions.
To identify the divalent metal ions that can support the self-cleavage activity of the genomic ribozyme of human hepatitis delta virus (HDV), we tested the activity of various divalent metal ions in the ribozyme reactions catalyzed by HDV88 (683-770 nt) and 88DI3 (HDV88 with the sequence from 740-752 nt deleted). Among various metal ions tested, Mg2+, Mn2+, Ca2+ and Sr2+ efficiently supported t...
متن کاملThe naturally trans-acting ribozyme RNase P RNA has leadzyme properties
Divalent metal ions promote hydrolysis of RNA backbones generating 5'OH and 2';3'P as cleavage products. In these reactions, the neighboring 2'OH act as the nucleophile. RNA catalyzed reactions also require divalent metal ions and a number of different metal ions function in RNA mediated cleavage of RNA. In one case, the LZV leadzyme, it was shown that this catalytic RNA requires lead for catal...
متن کاملCatalytic cleavage of cis- and trans-acting antigenomic delta ribozymes in the presence of various divalent metal ions.
Catalytic activity of four structural variants of the antigenomic delta ribozyme, two cis- and two trans-acting, has been compared in the presence of selected divalent metal ions that effectively support catalysis. The ribozymes differ in regions that are not directly involved in formation of the ribozyme active site: the region immediately preceding the catalytic cleavage site, the P4 stem and...
متن کاملA further investigation and reappraisal of the thio effect in the cleavage reaction catalyzed by a hammerhead ribozyme.
We synthesized three types of 11mer substrate, namely the natural substrate S11O and the thio-substituted substrates S11 S pS and S11 R pS, in which the respective pro-S p and pro-R p oxygen atoms were replaced by sulfur, and subjected them to detailed kinetic analysis in the cleavage reaction catalyzed by a hammerhead ribozyme. In agreement with previous findings, in the presence of Mg(2+)or C...
متن کاملExplanation by the double-metal-ion mechanism of catalysis for the differential metal ion effects on the cleavage rates of 5'-oxy and 5'-thio substrates by a hammerhead ribozyme.
In a previous examination using natural all-RNA substrates that contained either a 5'-oxy or 5'-thio leaving group at the cleavage site, we demonstrated that (i) the attack by the 2'-oxygen at C17 on the phosphorus atom is the rate-limiting step only for the substrate that contains a 5'-thio group (R11S) and (ii) the departure of the 5' leaving group is the rate-limiting step for the natural al...
متن کامل