The chloroplast plays an indispensable role in plant growth and development, but its proteome remains to be further improved. The size and information about Chloroplast Proteome in Arabidopsis varies among different data sources and the number of confirmed chloroplast proteins is obviously inadequate with the comparison of previously prediction. Here a great effort has been made to generate a most comprehensive chloroplast proteome in Arabidopsis and provide new insight into the function of chloroplast.
The structure of chloroplast
Furthermore, in order to explore the functional proteomics in chloroplast, we adopted a network-based approach to infer functions for those unknown proteins by searching PIN structure and annotated novel functions for 33.42% of the unknown-functional proteins in ArathChloP. We assigned protein functions according to the enriched function term within its level-1 and level-2 neighboring proteins referring to the method described in BioPlex Network..
Meanwhile, we mapped 37 newly identified proteins functioning in 52 pathways sites in AraCyc pathway system based on the PPI network according to the enriched pathway at the level-1 and level-2 neighboring proteins.
The chloroplast proteome data is available and free access in our AtPID database, you can get the data from the "download" module.