Protein and Peptide Letters - Volume 31, Issue 10, 2024

Several key functions of plants, such as photosynthesis, nutrient transport, disease resistance, and abiotic tolerance, are manifested by several classes of proteins. Prediction of 3-dimensional (3-D) structures of proteins and their working mechanisms can have a profound impact on plant proteomics research and could help improve key agricultural traits in crop plants. This review aims to present the current status of plant protein structure determination and discuss the way forward. Most experimentally proven protein structures are available only for the model plant Arabidopsis thaliana. Most of the key crop plants have only a few hundred or fewer experimentally proven 3-D structures. Fewer than 1% of the protein sequences in the majority of plants have had their 3D structures experimentally determined, and A. thaliana is the sole plant with the highest percentage of 1.4% of protein sequences with experimentally determined structures. AI-based protein structure prediction tool AlphaFold has predicted models of several thousand proteins for many crop plants. In AlphaFold predicted protein models, soybean has the highest percentage (65%) of its UniProt protein sequences with predicted models, and a few other crop plants have also a considerable percentage of its UniProt sequences with AlphaFold predicted models. AlphaFold might help predict models and bridge the gap in plant structure determination studies. Protein structure information might lead to engineering key residues to improve the agronomical performance of crop plants.

Amidst the rising global burden of neurodegenerative diseases, such as Alzheimer's and Parkinson's diseases, there is an urgent need for novel therapeutic strategies to combat these debilitating conditions. These diseases are characterized by progressive neural dysfunction leading to cognitive impairments, for which current therapeutic strategies remain palliative at best. Recently, the discovery of ferroptosis, a novel cell death mode that is different from apoptosis and autophagy, has opened new avenues in the field of cognitive research. With in-depth research on ferroptosis, the clinical significance of iron homeostasis disorders and lipid peroxidation in the occurrence, development, and treatment of neurodegenerative diseases are gradually becoming apparent. This study aims to elucidate the roles of ferroptosis in the context of neurodegeneration and to explore its potential as a therapeutic target. By unraveling the intricate relationship between iron homeostasis disorders, oxidative damage, and lipid metabolism disturbances in these diseases, new intervention targets are revealed. It offers a new dimension to the management of neurocognitive impairments in Alzheimer's and Parkinson's diseases. The implications of these findings extend beyond just Alzheimer's and Parkinson's diseases. They also have relevance with other neurological conditions characterized by oxidative stress and iron dysregulation. This review contributes to increased knowledge of ferroptosis and provides a foundational understanding that could lead to the development of innovative therapeutic strategies. Ultimately, it may alleviate the development of neurodegenerative diseases and improve cognitive function by preventing ferroptosis, which has not only academic significance but also potential clinical significance.

The study of large protein sets (proteomics) involved in the immunological reaction is known as immunoproteomics. The methodology of immunoproteomics plays a major role in identifying possible vaccine candidates that could protect against pathogenic infection. The study of immunogenic proteins that are expressed during the outset of infection is the focus of the cross-talk between proteomics and immune protection antigens utilizing serum. Peptide presentation by MHC provides the new ‘window’ into changes that occur in the cell. Thus, there is strong, intense pressure on the pathogen that has been mutated in such an unusual manner that it can bypass the MHC peptide presentation by the MHC molecule. The pathogen's ability to evade the immune system is strongly restricted by the two unique distinct properties of MHC molecules, i.e., polygenic and polymorphic properties. MHC-I restriction epitope identification has traditionally been accomplished using genetic motif prediction. The study of immune system proteins and their interactions is the main emphasis of the specialist field of immunoproteomics within proteomics. Methodologies include mass spectrometry (MS), SRM assay, MALDI-TOF, Chromatography, ELISA, 2DG PAGE, and bioinformatics tools. Challenges are the complexity of the immune system, protein abundance and dynamics, sample variability, post-translational modifications (PTMs), and data integration. Current advancements are enhanced mass spectrometry techniques, single-cell proteomics, artificial intelligence and machine learning, advanced protein labeling techniques, integration with other omics technologies, and functional proteomics. However, the recently emerging field of immunoproteomics has more promising possibilities in the field of peptide-based vaccines and virus-like particle vaccines. The importance of immunoproteomics technologies and methodologies, as well as their use in the field of vaccinomics, are the main topics of this review. Here, we have discussed immunoproteomics in relation to a step towards the future of vaccination.

Cancer is a deadly disease that has claimed millions of lives worldwide. Traditional cancer treatments, such as chemotherapy and radiation, have been used for many years but have become less favored due to drug resistance, lack of tumor selectivity, high costs, and various side effects, such as fatigue and hair loss. Many studies have reported that animal venoms, such as those from snakes, scorpions, and bees, contain bioactive peptides that can be synthesized into anti-cancer peptides (ACPs), which offer a potential alternative to traditional cancer therapies. Apitherapy is an area of growing interest for the development of new cancer treatments using bee venom, which is a complex mixture of biologically active peptides, enzymes, bioactive amines, and non-peptide components that have been found to have anti-cancer properties. By leveraging these bioactive peptides, researchers could develop ACPs that are more targeted towards cancer cells, reducing the risk of adverse side effects and improving patient outcomes. The use of bee venom components in targeting cancer could provide a more selective, effective, and affordable approach to cancer therapy. While further research is needed, the potential benefits of using bee venom components in cancer therapy are significant and could help improve the lives of cancer patients worldwide. This study aims to review the components of bee venom as potential cancer treatments.