Resources

Proteomics Databases



Metabolomics Databases

• • APEX Proximity Labeling

  APEX proximity labeling, utilizing engineered ascorbate peroxidase (APEX), is a robust method for investigating protein interactions and subcellular localization within living cells. The central component of this technique is the modified peroxidase APEX, which is fused to target proteins or cellular structures to facilitate rapid and covalent labeling of proximal proteins. When compared to traditional approaches like immunoprecipitation and yeast two-hybrid methods, APEX proximity labeling offers enh......

• • Proteomics in Biotechnology

  Proteomics in biotechnology is a discipline that focuses on the comprehensive study of the proteome—the complete set of proteins expressed by an organism—encompassing their structures, functions, dynamic alterations, and interactions. Proteins are fundamental to life, executing essential cellular functions such as catalyzing metabolic reactions, DNA replication, and signal transduction. The advent of proteomics enables researchers to systematically explore the intricate network of proteins and their r......

• • Western Blot Detection of Histone Methylation

  Western blot detection of histone methylation is a crucial approach in epigenetics, enabling researchers to investigate how histone modifications regulate chromatin structure and transcriptional activity. Histone methylation is a form of post-translational modification that critically influences gene expression programs. Catalyzed by histone methyltransferases (HMTs), this process involves the enzymatic transfer of methyl groups from the donor S-adenosylmethionine to lysine residues on histone tails.

• • Websites for Analyzing Glycosylation Sites

  Various websites for analyzing glycosylation sites have been developed to support the accurate prediction of glycosylation patterns in proteins. These platforms offer computational tools for identifying potential N-, O-, and C-linked glycosylation, as well as non-enzymatic glycation and GPI anchoring. Below are some widely used and well-documented resources that enable researchers to streamline their glycosylation analysis. NetNGlyc & NetOGlyc 1. Website: NetNGlyc and NetOGlyc 2. Function: These tools are..

• • Amino Acid Full Sequence Analysis

  Amino acid full sequence analysis serves as a foundational approach for understanding protein function, beginning with the elucidation of the primary structure—the linear arrangement of amino acids connected by peptide bonds to form a polypeptide chain. This initial level of analysis provides critical insights into the molecular architecture and biological roles of proteins and typically involves the following steps: 1. Determination of the Amino Acid Sequence The amino acid sequence is established using...

• • Commonly Used Proteases in Protein Sequencing

  Protein sequencing refers to the process of determining the amino acid sequence of a protein. Commonly used proteases in protein sequencing are essential to this process, as they enzymatically cleave proteins into smaller peptide fragments suitable for analysis. Below are commonly used proteases and their detailed characteristics: Trypsin 1. Cleavage Specificity Trypsin cleaves peptides at the carboxyl side of lysine (K) and arginine (R) residues. 2. Key Features As the most widely used protease in ........

• • Microtubule Protein Acetylation Detection

  Microtubule protein acetylation detection is a key analytical approach used to assess the post-translational modification status of tubulin proteins, which are critical structural components of the cytoskeleton. Microtubules are primarily composed of α- and β-tubulin heterodimers and play essential roles in various cellular processes. 1. Maintenance of Cell Morphology Microtubules provide essential structural support that helps preserve cellular shape and mechanical stability. 2. Intracellular Transport....

• • Quantitative Determination of Immunoglobulins

  Commonly Used Determination Methods 1. Nephelometry and Turbidimetry These two methods rely on the principle that antigen-antibody complexes increase the turbidity of a solution. The concentration of immunoglobulins is quantified by measuring either the intensity of light scattering (nephelometry) or absorbance (turbidimetry) in the reaction mixture. 2. Enzyme-Linked Immunosorbent Assay (ELISA) This method utilizes enzyme-conjugated specific antibodies. Upon binding to the target immunoglobulin, the .......

• • Methods of Proteolytic Digestion in Proteomics

  Proteolytic digestion plays a pivotal role in proteomics by breaking down proteins into smaller peptide fragments, enabling comprehensive downstream analysis and accurate protein identification. This procedure is essential for elucidating protein structure and function, as well as understanding their involvement in various biological processes. The following is a detailed overview of commonly used methods for proteolytic digestion: Preparation Work 1. Protein Sample Preparation The initial step involves....

• • Epitope Mapping of Antigen-Antibody Binding

  Epitope mapping of antigen-antibody binding is a technique used to identify specific regions on an antigen molecule that are recognized by antibodies. An epitope, also referred to as an antigenic determinant, is a particular site on the antigen that is bound specifically by an antibody. Epitopes can be either linear, comprising a continuous stretch of amino acids, or conformational, formed by non-contiguous residues that come into proximity through the folding of the antigen’s three-dimensional structure.