Biology subjects

De Sciscio, M. L.

Publications and source records attributed to De Sciscio, M. L..

3 recordsLinked to original sources

bioRxiv2026

Molecular determinants of Bcl-xL membrane insertion - Structural plasticity exploration in solution and in nanodiscs identifies IsoAsp deamidation as a loss-of function mechanism in vivo.

Multi-domain Bcl-2 family proteins share the ability to form dimers and oligomers, regardless of their pro- or anti-apoptotic activity. Homotypic interactions (pro-pro and anti-anti) and heterotypic interactions (pro-anti) are well-documented, but the role of higher-order organization in their survival/death functions and membrane interactions remains largely unresolved. Looking into anti-apoptotic Bcl-xL, essentially engineered/truncated proteoforms lacking the disordered loop and/or the hydrophobic C-terminal helix, have been used as proxies of the full-length (FL) protein, to elaborate on structural transitions and intermediate states between monomers and homooligomers prior to membrane insertion. Using a minimalist approach with recombinant FL-Bcl-xL (aa 1-233) and artificial nano-membranes, we demonstrate that both the loop and the C-terminal helix are potent contributors to Bcl-xL structural plasticity. Unlike 3D domain swapping (3DDS) dimers resolved with the C-terminal truncated protein, FL-Bcl-xL organized in solution as dimers bridging the unique Cys151 from two monomers. This spontaneous fold indicates that the C-terminal helix drives FL-Bcl-xL to explore different conformations than truncated Bcl-xL. Yet, dimerization was not a prerequisite for membrane insertion into nanodiscs and Cys151 did not contribute to Bcl-xL survival functions in cells. These data support monomeric Bcl-xL as the minimal functional unit in membranes. Further exploring the frequently deleted disordered loop, we discovered that deamidation of Asn52 and Asn66 in IsoAsp, but not in Asp, impairs membrane insertion into nanodiscs. Thus, this reductionist biochemical approach clarifies the loss of tumorigenic function we observed for deamidated Bcl-xL in xenograft experiments in vivo.

biochemistry↗

bioRxiv2025

Tuning antibody stability and function by rational designs of framework mutations

Artificial intelligence and machine learning models have been developed to engineer antibodies for specific recognition of antigens, however these approaches often focus on the antibody complementarity determining region (CDR) whilst ignoring the immunoglobulin framework (FW) which provides structural rigidity and support for the flexible CDR loops. Here we present an integrated computational-experimental workflow, combining static structure analyses, molecular dynamics simulations and in vitro physicochemical and functional assays to generate rational designs of FW mutations for modulating antibody stability and activity. We first showed that recent antibody-specific language models lacked insights in FW mutagenesis, in comparison to approaches which utilised antibody structure information. Using the widely-used breast cancer therapeutic trastuzumab as a use case, we designed stabilising mutants which were distal to the CDR and preserved the antibodys functionality to engage its cognate antigen (HER2) and induce antibody-dependent cellular cytotoxicity (ADCC). Interestingly, guided by local backbone motions predicted using molecular dynamics simulations, we designed a FW mutation on the trastuzumab light chain which retained antigen-binding effects but lost Fab-mediated and Fc-mediated effector functions. This highlighted effects of FW on immunological functions engendered in distal areas of the antibody, and the importance to consider attributes other than binding affinity when assessing antibody function. Our approach incorporates interdomain dynamics and distal effects between FW and the Fc domains, expands the scope of antibody engineering beyond the CDR, and underscores the importance of a holistic perspective that considers the entire antibody structure as a whole in optimising antibody stability, developability and function.

immunology↗

bioRxiv2024

Corylus avellana non-specific lipid-transfer protein Cor a 8 is a moonlighting enzyme with a new lipase activity

The high-fat content of hazelnuts, mainly triglycerides, makes them prone to lipid oxidation during storage, which has a big impact on their sensory and nutritional quality. The chemical pathways leading to hazelnut oxidative rancidity have been well characterized and it are faster on free fatty acids. Lipase(s) enzymes are required, in oilseed, to hydrolyze the ester bond to free the single molecule of fatty acids. This step, necessary for germination, is the first event to trigger rancidity. Identifying the lipase(s) enzyme and the biochemical pathways involved in rancidity would lead to an effective strategy to prevent fat deterioration. Different proteins have been characterized in hazelnut seed and great interest has been risen towards the non-specific lipid transfer protein family because they were identified as human allergens. Here we show that Cor a 8 - a member of nsLTP - is a novel non-regiospecific lipase that is able to bind to oil-water interfaces and hydrolyze the triacylglycerol (TAGs) ester bonds by a non-canonical active site (non-serine dependent). Molecular modelling and molecular dynamics suggest that Cor a 8 is a moonlighting enzyme not only able to catalyze the hydrolysis of TAGs but also to stabilize the resulting free fatty acids and transport it. Cor a 8 homologues are present in all land plants, but the specific catalytic amino acids are found only in angiosperms, suggesting an evolutionary adaptation for lipid metabolism unique to flowering plants. This study sets the foundation for understanding this new lipid metabolism in plants and its role in rancidity development.

biochemistry↗