Sequence-structure relationships in RNA loops: Establishing the basis for loop homology modeling

  • Schudoma C
  • May P
  • Nikiforova V
 et al. 
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Abstract

The specific function of RNA molecules frequently resides in their seemingly unstructured loop regions. We performed a systematic analysis of RNA loops extracted from experimentally determined three-dimensional structures of RNA molecules. A comprehensive loop-structure data set was created and organized into distinct clusters based on structural and sequence similarity. We detected clear evidence of the hallmark of homology present in the sequence-structure relationships in loops. Loops differing by

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