Protein Charge and Mass Contribute to the Spatio-temporal Dynamics of Protein-Protein Interactions in a Minimal Proteome

摘要: We constructed and simulated a "minimal proteome" model using Langevin dynamics. It contains 206 essential protein types that were compiled from the literature. For comparison, we generated six proteomes with randomized concentrations. found net charges molecular weights of proteins in minimal genome are not random. The charge decreases linearly weight, small being mostly positively charged large negatively charged. copy numbers have tendency to maximize number protein-protein interactions network. Negatively tend larger sizes can provide collision cross-section allowing them interact other proteins; on hand, smaller could higher diffusion speed more likely collide proteins. Proteomes random charge/mass populations form less stable clusters than those experimental numbers. Our study suggests "proper" important for maintaining interaction network proteome. is interesting note based mass Escherichia coli may lower organism Mycoplasma pneumoniae.