Quantitative Cross-Linking of Proteins and Protein Complexes

Creation of Chemically Tri-Layered Collagen Crosslinked Membranes and Their Comparison with Ionically Tri-Layered Chitosan Crosslinked Membranes to Study Human Skin Properties

In 2009, a new European regulation came into force that forbade the use of animals in the cosmetics industry. As a result, new alternatives were sought, taking into account the new ethical considerations. The main objective of this article is to continue a line of research that aims to build a physical model of skin from a biomaterial scaffold composed of collagen, chitosan or a combination to investigate whether they offer similar behavior to human skin. Collagen, the major component in the dermis, was crosslinked with glutaraldehyde (GTA) to develop three formulations for studying some properties of the skin through rheological tests like swelling index, elasticity or water loss. In addition, this article makes a comparison with the results obtained in the previous article where the membranes were made of chitosan and tripolyphosphate (TPP). The results obtained highlight that the tri-layered membranes scaffold better than the mono-layered ones to increase the elastic modulus (G') and the permeability. Furthermore, they offer a protective effect against water loss compared to mono-layered membranes. As regards chitosan membranes, these have a higher G' modulus than collagen membranes when the degree of deacetylation (DDA) is 85%. However, collagen membranes are more elastic when the DDA of chitosan is 76%, and their linear viscoelastic limit (LVL) doubles that of chitosan membranes, both for the degree of acetylation of 76 and 85%.

Structural RNA components supervise the sequential DNA cleavage in R2 retrotransposon

Retroelements are the widespread jumping elements considered as major drivers for genome evolution, which can also be repurposed as gene-editing tools. Here, we determine the cryo-EM structures of eukaryotic R2 retrotransposon with ribosomal DNA target and regulatory RNAs. Combined with biochemical and sequencing analysis, we reveal two essential DNA regions, Drr and Dcr, required for recognition and cleavage. The association of 3' regulatory RNA with R2 protein accelerates the first-strand cleavage, blocks the second-strand cleavage, and initiates the reverse transcription starting from the 3'-tail. Removing 3' regulatory RNA by reverse transcription allows the association of 5' regulatory RNA and initiates the second-strand cleavage. Taken together, our work explains the DNA recognition and RNA supervised sequential retrotransposition mechanisms by R2 machinery, providing insights into the retrotransposon and application reprogramming.

An approach to nearest neighbor analysis of pigment-protein complexes using chemical cross-linking in combination with mass spectrometry

Protein cross-linking is the process of chemically joining two amino acids in a protein or protein complex by a covalent bond. When combined with mass spectrometry, it becomes one of the structural mass spectrometry techniques gaining in importance for deriving valuable three-dimensional structural information on proteins and protein complexes. This platform complements existing structural methods, such as NMR spectroscopy, X-ray crystallography, and cryo-EM. Photosynthetic pigment protein complexes serve as light-energy harvesting systems and perform photochemical conversion as part of the "early events" of photosynthesis. This chapter outlines how to prepare cross-linking pigment protein complex samples for LC-MS/MS analysis, including identification of the cross-linked species, network analysis in a protein complex, and structural modeling and justification.