Protein's study

hi, I have a set of proteins from Neisseria bacteria one specific strain with their level of expression after rat infection in different anatomical location and need to know what of those proteins have significant importance? i need a guide to know how I could search these proteins and organize them in groups according to pathogensis ? beer in the mind many of these proteins are known their pathways and very popular protein like the proteins involved in the TCA cycle and glucogenesis!! so it is difficult for example to say this protein enzyme is involved in the attachment. how could I classify them? and i would be grateful if someone can give me bioinformatically new insights to do new research’s on those proteins? Thanks