The catalytic domain of human hepatitis delta virus RNA

Abstract

We have obtained and analyzed the 600 MHz proton NMR spectra of a 74-mer RNA derived from the catalyttc domain of hepatttts delta vtrus genomic RNA (HDV RNA) to determme its secondary structure Deconvolutton of the NMR spectrum obtamed at 32°C mdicates that part of the 74.mer RNA molecule may exist m multiple conformattons m equilibrtum The major conformer contams t&o A-U base pans and I4 2 2 G~C base pairs It appears to contain no standard G-U base pairs. Our NMR melttng study suggests that this conformer has at least two stem-loop regions, One of the regtons has been tdentificd to be a tetra-loop. We have assigned five ammo proton resonances of the tetra-loop stem Our data ts conststent wth the pseudoknot model of Perrotta and Been Rtbozyme. RNA: Structure, NMR. Hcpatitts delta vtrus

Intracellular cleavage and ligation of hepatitis delta virus genomic RNA: regulation of ribozyme activity by cis-acting sequences and host factors

“…Figure 1A displays the proposed pseudoknot-like structure of the genomic ribozyme as adapted from Been (1). Evidence from both his laboratory and at least three additional laboratories supports the validity of the proposed structure (9,15,21,28). However, during infection, this 85-nt sequence functions in the context of the whole 1.7-kb genome.…”

3-D models of the antigenomic ribozyme of the hepatitis delta agent with eight new contacts suggested by sequence analysis of 188 cDNA clones

“…Both comparative sequence analysis and a variety of biochemical studies indicate that the genomic and antigenomic ribozymes have closely related, but not identical, structures. Several models for each ribozyme have been proposed, tested, refined (14,(16)(17)(18)(19)(20)(21)(22)(23)(24)(25)(26)(27)(28)(29)(30)(31)(32)(33)(34)(35) and reviewed (13). Despite the progress that has been made, more work is needed to establish the details ofthe active structures.…”