Article

Towards deciphering the principles underlying an mRNA recognition code

Structural Biology Program, Memorial Sloan-Kettering Cancer Center, New York, NY 10021, USA.
Current Opinion in Structural Biology (Impact Factor: 8.75). 03/2008; 18(1):120-9. DOI: 10.1016/j.sbi.2007.12.006
Source: PubMed

ABSTRACT Messenger RNAs interact with a number of different molecules that determine the fate of each transcript and contribute to the overall pattern of gene expression. These interactions are governed by specific mRNA signals, which in principle could represent a special mRNA recognition 'code'. Both, small molecules and proteins demonstrate a diversity of mRNA binding modes often dependent on the structural context of the regions surrounding specific target sequences. In this review, we have highlighted recent structural studies that illustrate the diversity of recognition principles used by mRNA binders for timely and specific targeting and processing of the message.

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    • "Over the past few years, there has been an increasing interest in RNA biology and RNA binding proteins. Structural studies of protein–RNA complexes are therefore needed if we want to understand how proteins recognise specifically their RNA targets and to derive a general code for RNA recognition [55,56]. The intrinsic properties of such complexes, however, make them difficult to study structurally. "
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    • "Folding upon binding represents an extreme class of conformational change, but it may be an option for high-confidence predictions . Another challenge in the computational analysis of RNP interactome is that many RNA-binding proteins recognize just RNA sequences that are in single-stranded regions (Extended Discussion, 3; Agostini et al., 2013; Goodarzi et al., 2012; Serganov and Patel, 2008; Shulman-Peleg et al., 2008). An inherent limitation of using only solved structures is that many of these are protein domains, not full-length proteins. "
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