5/26/2023 0 Comments Xylella cytoscape![]() and host colonization for the xylem-limited phytopathogen Xylella fastidiosa. We present case studies of proteins related to uronate isomerase (an amidohydrolase superfamily member) and mandelate racemase (an enolase superfamily member), to illustrate how this structure-focused approach can be used to generate hypotheses about sequence–structure–function relationships. The resulting network was visualized in Cytoscape v3.8.2 using edge-weighted spring. They are utilized by cells in various biological processes such as cell wall biosynthesis, cellular respiration, DNA replication, oxidative stress responses, protein biosynthesis, signal transduction, etc. ![]() To date, 20 unique amidohydrolase and 41 unique enolase structures have been determined, increasing the fraction of sequences in the two superfamilies that can be modeled based on at least 30% sequence identity from 45% to 73%. Metal ions are one of the most crucial micronutrients required for the survival and growth of all domains of life, including humans. in a virulence factor of Xylella fastidiosa using a duplicated gene as a template. Spearsmans correlation (P < 0.01) and network graphs were. Using sequence- and structure-based protein comparisons, we first selected 535 target proteins from a variety of genomes for high-throughput structure determination by X-ray crystallography 63 of these targets were not previously annotated as superfamily members. Cytoscape tools for the web age: D3.js and Cytoscape.js exporters. Network correlations were determined by significant pairwise using. ![]() Here, we describe a collaboration between the Enzyme Specificity Consortium (ENSPEC) and the New York SGX Research Center for Structural Genomics (NYSGXRC) that aims to maximize the structural coverage of the amidohydrolase and enolase superfamilies. (2013) RNA-Seq analysis of Citrus reticulata in the early stages of Xylella fastidiosa infection reveals auxin-related genes. To study the substrate specificity of enzymes, we use the amidohydrolase and enolase superfamilies as model systems members of these superfamilies share a common TIM barrel fold and catalyze a wide range of chemical reactions. ![]()
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