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I am interested in protein function within viruses, especially on how they work together.

Is there any study about grouping proteins in viruses as functional modules?

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there are several proteins in viruses. It would be easier to answer if you focus on some categories of proteins. e.g. structural proteins or replication associated proteins etc –  WYSIWYG Jul 8 '13 at 9:03
    
Do you mean "within viruses" as in "inside the virus, before it has contact with a host cell"? Then there are only the capsid proteins, that make up the outer "wall" of it. As a virus has no own transcription and translation nor any other metabolism going on, every other protein this virus might have coding DNA/RNA (depending on the virus) for is produced by the host cell after infection. The host cell also produces and structures the capsid proteins for new viruses. They are set free either after host cell death or by passing its membrane/cell wall. –  skymninge Jul 9 '13 at 15:03

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