Division of Physiological Chemistry I, Department of Medical Biochemistry and Biophysics, Karolinska Institute, SE 171 77 Stockholm, Sweden.
Genomics Proteomics Bioinformatics. 2013 Aug;11(4):219-29. doi: 10.1016/j.gpb.2013.07.002. Epub 2013 Aug 3.
Proteome-wide Amino aCid and Elemental composition (PACE) analysis is a novel and informative way of interrogating the proteome. The PACE approach consists of in silico decomposition of proteins detected and quantified in a proteomics experiment into 20 amino acids and five elements (C, H, N, O and S), with protein abundances converted to relative abundances of amino acids and elements. The method is robust and very sensitive; it provides statistically reliable differentiation between very similar proteomes. In addition, PACE provides novel insights into proteome-wide metabolic processes, occurring, e.g., during cell starvation. For instance, both Escherichia coli and Synechocystis down-regulate sulfur-rich proteins upon sulfur deprivation, but E. coli preferentially down-regulates cysteine-rich proteins while Synechocystis mainly down-regulates methionine-rich proteins. Due to its relative simplicity, flexibility, generality and wide applicability, PACE analysis has the potential of becoming a standard analytical tool in proteomics.
蛋白质组全氨基酸和元素组成(PACE)分析是一种新颖且信息量丰富的蛋白质组学研究方法。PACE 方法包括将蛋白质组学实验中检测和定量的蛋白质在计算机上分解为 20 种氨基酸和 5 种元素(C、H、N、O 和 S),并将蛋白质丰度转换为氨基酸和元素的相对丰度。该方法具有稳健性和高度敏感性;它可以在非常相似的蛋白质组之间提供具有统计学意义的可靠区分。此外,PACE 为蛋白质组范围内的代谢过程提供了新的见解,例如在细胞饥饿期间发生的过程。例如,当硫缺乏时,大肠杆菌和集胞藻都会下调富含硫的蛋白质,但大肠杆菌优先下调富含半胱氨酸的蛋白质,而集胞藻主要下调富含蛋氨酸的蛋白质。由于其相对简单、灵活、通用和广泛的适用性,PACE 分析有可能成为蛋白质组学中的标准分析工具。