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Science 12 May 2006:
Vol. 312. no. 5775, pp. 906 - 910
DOI: 10.1126/science.1126629
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Reports

RNA Recognition and Cleavage by a Splicing Endonuclease

Song Xue, Kate Calvin, Hong Li*

The RNA splicing endonuclease cleaves two phosphodiester bonds within folded precursor RNAs during intron removal, producing the functional RNAs required for protein synthesis. Here we describe at a resolution of 2.85 angstroms the structure of a splicing endonuclease from Archaeglobus fulgidus bound with a bulge-helix-bulge RNA containing a noncleaved and a cleaved splice site. The endonuclease dimer cooperatively recognized a flipped-out bulge base and stabilizes sharply bent bulge backbones that are poised for an in-line RNA cleavage reaction. Cooperativity arises because an arginine pair from one catalytic domain sandwiches a nucleobase within the bulge cleaved by the other catalytic domain.

Department of Chemistry and Biochemistry, Institute of Molecular Biophysics, Florida State University, Tallahassee, FL 32306, USA.

* To whom correspondence should be addressed. E-mail: hongli{at}sb.fsu.edu

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THIS ARTICLE HAS BEEN CITED BY OTHER ARTICLES:
Mammalian 2',3' cyclic nucleotide phosphodiesterase (CNP) can function as a tRNA splicing enzyme in vivo.
B. Schwer, A. Aronova, A. Ramirez, P. Braun, and S. Shuman (2008)
RNA 14, 204-210
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Identification and characterization of a tRNA decoding the rare AUA codon in Haloarcula marismortui.
C. Kohrer, G. Srinivasan, D. Mandal, B. Mallick, Z. Ghosh, J. Chakrabarti, and U. L. Rajbhandary (2008)
RNA 14, 117-126
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Structural and Mutational Analysis of tRNA Intron-Splicing Endonuclease from Thermoplasma acidophilum DSM 1728: Catalytic Mechanism of tRNA Intron-Splicing Endonucleases.
Y. K. Kim, K. Mizutani, K.-H. Rhee, K.-H. Nam, W. H. Lee, E. H. Lee, E. E. Kim, S.-Y. Park, and K. Y. Hwang (2007)
J. Bacteriol. 189, 8339-8346
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The dawn of dominance by the mature domain in tRNA splicing.
G. D. Tocchini-Valentini, P. Fruscoloni, and G. P. Tocchini-Valentini (2007)
PNAS 104, 12300-12305
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'In-line attack' conformational effect plays a modest role in an enzyme-catalyzed RNA cleavage: a free energy simulation study.
D. Min, S. Xue, H. Li, and W. Yang (2007)
Nucleic Acids Res.
   Abstract »    Full Text »    PDF »
Sequence-specific binding of single-stranded RNA: is there a code for recognition?.
S. D. Auweter, F. C. Oberstrass, and F. H.-T. Allain (2006)
Nucleic Acids Res. 34, 4943-4959
   Abstract »    Full Text »    PDF »


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Science. ISSN 0036-8075 (print), 1095-9203 (online)