Efficient new ribozyme mimics: direct mapping of molecular design principles from small molecules to macromolecular, biomimetic catalysts

• Published in: Nucleic acids research 2001-05, Vol.29 (10), p.2199-2204
• Main Authors: Putnam, W C, Daniher, A T, Trawick, B N, Bashkin, J K
• Format: Article
• Language: English
• Subjects: 2,9-dimethylphenanthroline; Base Sequence; Catalysis; Cations, Divalent - metabolism; Copper - metabolism; Dimerization; Drug Design; Kinetics; Ligands; Molecular Mimicry; Molecular Structure; neocuproine; Phenanthrolines - chemical synthesis; Phenanthrolines - chemistry; Phenanthrolines - metabolism; Pyridines - metabolism; RNA - chemistry; RNA - genetics; RNA - metabolism; RNA Probes - chemistry; RNA Probes - genetics; RNA Probes - metabolism; RNA, Catalytic - metabolism; Structure-Activity Relationship; Substrate Specificity
• ISSN: 1362-4962; 0305-1048; 1362-4962
• DOI: 10.1093/nar/29.10.2199

Dramatic improvements in ribozyme mimics have been achieved by employing the principles of small molecule catalysis to the design of macromolecular, biomimetic reagents. Ribozyme mimics derived from the ligand 2,9-dimethylphenanthroline (neocuproine) show at least 30-fold improvements in efficiency at sequence-specific RNA cleavage when compared with analogous o-phenanthroline- and terpyridine-derived reagents. The suppression of hydroxide-bridged dimers and the greater activation of coordinated water by Cu(II) neocuproine (compared with the o-phenanthroline and terpyridine complexes) better allow Cu(II) to reach its catalytic potential as a biomimetic RNA cleavage agent. This work demonstrates the direct mapping of molecular design principles from small-molecule cleavage to macromolecular cleavage events, generating enhanced biomimetic, sequence-specific RNA cleavage agents.