1SJ4
Crystal structure of a C75U mutant Hepatitis Delta Virus ribozyme precursor, in Cu2+ solution
Summary for 1SJ4
| Entry DOI | 10.2210/pdb1sj4/pdb |
| Related | 1CX0 1DRZ 1SJ3 |
| Descriptor | precursor form of the Hepatitis Delta virus ribozyme, small nuclear ribonucleoprotein A (3 entities in total) |
| Functional Keywords | hdv; ribozyme; rna; u1a; precurosr, translation-rna complex, translation/rna |
| Biological source | Hepatitis delta virus More |
| Cellular location | Nucleus: P09012 |
| Total number of polymer chains | 2 |
| Total formula weight | 35965.99 |
| Authors | Ke, A.,Zhou, K.,Ding, F.,Cate, J.H.,Doudna, J.A. (deposition date: 2004-03-02, release date: 2004-05-18, Last modification date: 2024-02-14) |
| Primary citation | Ke, A.,Zhou, K.,Ding, F.,Cate, J.H.,Doudna, J.A. A Conformational Switch controls hepatitis delta virus ribozyme catalysis Nature, 429:201-205, 2004 Cited by PubMed Abstract: Ribozymes enhance chemical reaction rates using many of the same catalytic strategies as protein enzymes. In the hepatitis delta virus (HDV) ribozyme, site-specific self-cleavage of the viral RNA phosphodiester backbone requires both divalent cations and a cytidine nucleotide. General acid-base catalysis, substrate destabilization and global and local conformational changes have all been proposed to contribute to the ribozyme catalytic mechanism. Here we report ten crystal structures of the HDV ribozyme in its pre-cleaved state, showing that cytidine is positioned to activate the 2'-OH nucleophile in the precursor structure. This observation supports its proposed role as a general base in the reaction mechanism. Comparison of crystal structures of the ribozyme in the pre- and post-cleavage states reveals a significant conformational change in the RNA after cleavage and that a catalytically critical divalent metal ion from the active site is ejected. The HDV ribozyme has remarkable chemical similarity to protein ribonucleases and to zymogens for which conformational dynamics are integral to biological activity. This finding implies that RNA structural rearrangements control the reactivity of ribozymes and ribonucleoprotein enzymes. PubMed: 15141216DOI: 10.1038/nature02522 PDB entries with the same primary citation |
| Experimental method | X-RAY DIFFRACTION (2.7 Å) |
Structure validation
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