Methods are described for improvement of the serum 
half life of therapeutic nucleic acids by 3′ conjugation to useful target proteins, or other large molecules with useful function. In one embodiment, a 3′ A, C or G overhang is added to ds-
DNA and the primary amines conjugated using biocompatible 
bifunctional linkers to proteins. The resulting 
nucleic acid-3′-conjugates are serum 
nuclease-resistant and retained 
in vivo for long periods without rapid 
kidney clearance. Further, the choice of conjugate imparts additional functionality to the 
nucleic acid-3-conjugate. For example, if the 
protein in the 
DNA-
protein conjugate is the first component of the complement 
cascade (Clq or Clqrs) and the 
DNA aptamer has been developed against surface components of a target 
cell, it can be used to treat bacterial or parasitic infections and cancers. If the 
protein is 
serum albumin or another common (nonimmunogenic) blood protein and the 
aptamer is directed against a 
toxin or 
venom, the 
aptamer-protein conjugate can be used as an 
antidote that binds and neutralizes the 
toxin or 
venom. Similar DNA (aptamer)-
nanotube, -
enzyme, and -
toxin conjugates could also be used to target and selectively kill 
bacteria, parasites, and 
cancer cells 
in vivo. If the protein is an Fc 
antibody fragment or C3b protein from the 
complement system and the aptamer is developed against a bacterial 
cell capsular material, other 
cell surface component or viral cell surface component, then the aptamer-3′-protein conjugate can aid in opsonization of the target cells or viruses by phagocytic leukocytes.