Sequentially folded SV-11 RNA: metastability is relevant to biological function.
By simulating a Markov process comprising kinetically controlled elementary chain-growth steps and upstream refolding events, we compute the sequential folding of SV-11 RNA; a species capable of acting as a template instructing its own replication when folded into a metastable conformation. The predicted structure is endowed with available primers for replication and is identical within the regions of homology to the experimentally probed active structure of MNV-11 RNA, a species from which SV-11 RNA has evolved. The uneven rate of chain growth during SV-11 RNA replication and the pause sites along the replica sequence are determined. Such predictions are testable in pulse-chase kinetic experiments.
Fernández
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Instituto de Matemática, Universidad Nacional del Sur, Consejo Nacional de Investigaciones Científicas y Técnicas, Bahía Blanca, Argentina.
Belinky
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D001483:Base Sequence; D007700:Kinetics; D008969:Molecular Sequence Data; D009690:Nucleic Acid Conformation; D012313:RNA / Q000096:biosynthesis / Q000737:chemistry* / Q000378:metabolism; D013816:Thermodynamics
D012313:RNA