AI Article Synopsis

  • Noncovalent self-assembly of biopolymers relies on molecular interactions among functional groups, which compete with water interactions and are challenging to quantify.
  • The study introduces new methods to analyze how the osmolyte glycine betaine interacts with biopolymer surfaces, showing its effectiveness in cellular environments such as Escherichia coli due to its unique interaction properties.
  • Findings indicate that glycine betaine stabilizes protein-DNA binding by dehydrating specific molecular sites, providing insights for better modeling of protein interactions and advancing the understanding of biomolecular assembly processes.

Article Abstract

Noncovalent self-assembly of biopolymers is driven by molecular interactions between functional groups on complementary biopolymer surfaces, replacing interactions with water. Since individually these interactions are comparable in strength to interactions with water, they have been difficult to quantify. Solutes (osmolytes, denaturants) exert often large effects on these self-assembly interactions, determined in sign and magnitude by how well the solute competes with water to interact with the relevant biopolymer surfaces. Here, an osmometric method and a water-accessible surface area (ASA) analysis are developed to quantify and interpret the interactions of the remarkable osmolyte glycine betaine (GB) with molecular surfaces in water. We find that GB, lacking hydrogen bond donors, is unable to compete with water to interact with anionic and amide oxygens; this explains its effectiveness as an osmolyte in the Escherichia coli cytoplasm. GB competes effectively with water to interact with amide and cationic nitrogens (hydrogen bonding) and especially with aromatic hydrocarbon (cation-pi). The large stabilizing effect of GB on lac repressor-lac operator binding is predicted quantitatively from ASA information and shown to result largely from dehydration of anionic DNA phosphate oxygens in the protein-DNA interface. The incorporation of these results into theoretical and computational analyses will likely improve the ability to accurately model intra- and interprotein interactions. Additionally, these results pave the way for development of solutes as kinetic/mechanistic and thermodynamic probes of conformational changes and formation/disruption of molecular interfaces that occur in the steps of biomolecular self-assembly processes.

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Source
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2783871PMC
http://dx.doi.org/10.1021/bi901273rDOI Listing

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