Ribozyme structure

Scott, W. G., and King, A., 1996. Ribozymes Structure and mechanism in RNA catalysis. Trends in Biochemical Sciences 21 220-224. 

Warashina M, Zhou DM, KuwabaraT, Taira K (1999) Ribozyme structure and function. 

Figure 4.3 Chimeric hammerhead ribozyme structure. The ribozyme structure was computer modeled after the work of Pley et al. (1994). The yellow ribbon (backbone) and bases depict the catalytic core of the ribozyme, while the green ribbon (backbone) and bases depict the binding arms, which in this case are DNA from the work of Taylor etal. (1992). The magenta bases and ribbon (backbone) are the target RNA. The orange ribbon depicts the backbone of stem II, which can be minimally reduced to four propane diols and one G C base pair (J.Rossi and P.Swiderski, unpublished data). The blue ribbon represents the target backbone at the site of ribozyme-mediated cleavage, (see Color Plate 2)...

Basic studies of ribozyme structure and mechanisms of catalysis are flourishing in the midst of commercial interests. Based upon the research and development taking place in both academic and commercial settings, we can expect to see many new developments in ribozyme design and applications in the near future. 

Color Plate 2 Chimeric hammerhead ribozyme structure. 53... 

V. AN APPLICATION OF PHOTOINDUCED ET FOR RIBOZYME STRUCTURE AND FUNCTION DETERMINATION... 

Doherty, E.A., Doudna, J.A. Ribozyme structures and mechanisms. Annu. Rev. Biophys. Biomol. Struct. 2001, 30, 457-75. 

A comparison of hammerhead ribozyme structures solved in the presence of 0.1 M Zn, Co, or Cd shows that in addition to other sites also occupied by Mg, the transition metals bind at an additional site within 2.5 A of the N7 of position G5, a position relatively exposed to solvent.A Cd site including guanine N7 and a rare sugar 2 -OH as ligands has been modeled in a 2.6 A structure of a 23S rRNA subdomain bound to ribosomal protein Lll a different structure of this same RNA was also found to contain a site (see Section 8.29.4.2). 

BANERJEE ETAL. Hairpin Ribozyme Structure and Dynamics... 

Other RNA structures include the RNA claw from the DNA packaging motor from bacteriophage (p29/ the conformation of an RNA structural switch/ structures of miRNA/ the structure of the A730 loop from the Neurospora VS ribozyme/ structures or rRNA, the structure of RNA containing an internal UU loop from myotonic dystrophy type base pair opening found in the adenine tract of an RNA... 

---