Figure 1

The workflow utilized and resulting network for reconstructing protein translocation in E. coli. (A) An outline of the workflow used to reconstruct the protein translocation network in E. coli. At each step, various sources of data were used as inputs to the workflow. The resulting general network, compartmentalized content, and pathway breakdown are shown in greater detail to the right. (B) A diagram of the translocation pathways included in the reconstruction: SRP/Sec, SecB/Sec, Tat, YidC, Lol, Bam pathways, and three alternatives (dashed lines). Proteins that allow translocation are labeled in white while translocated protein types are labeled in black. Lipoprotein biogenesis is not depicted. (C) Model-simulated pORFs were assigned to one of four compartments. The numbers denote how many of the 1,568 proteins will end up in each compartment. (D) Each non-cytosolic pORF was assigned to a translocation pathway. Numbers in white are how many pORFs require that translocation-associated protein. The model also underwent several other updates, including the addition of known turnover rates that are denoted by black numbers.