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Alanine scanning mutagenesis, with subsequent characterization of the mutagenic effects on folding, association with gp120, and membrane fusion were performed to systematically examine the functional significance of each amino acid residue in heptad repeat 1 of HIV gp41 (HR1). The sensitivity of gp41 HR1 to alanine substitutions indicated that even subtle changes in the local environment might severely affect envelope function, and hence HR1 is an attractive site for therapeutic intervention.

The importance of the HIV gp120 conserved domain 5 (gp120-C5) to envelope function is examined by alanine scanning mutagenesis and subsequent characterization of the mutagenic effects on viral entry and envelope expression, processing and incorporation, as well as gp120 association with gp41. The extreme sensitivity of the gp120-C5 hydrophobic elbow to alanine substitutions has shown that this region is a novel target for drug discovery efforts.

The innate immune system senses viral DNA that enters mammalian cells, or in aberrant situations self-DNA, and triggers type I interferon production. Here we present an integrative approach that combines quantitative proteomics, genomics and small molecule perturbations to identify genes involved in this pathway. We silenced 809 candidate genes, measured the response to dsDNA and connected resulting hits with the known signaling network. We identified ABCF1 as a critical protein that associates with dsDNA and the DNA-sensing components HMGB2 and IFI204. We also found that CDC37 regulates the stability of the signaling molecule TBK1 and that chemical inhibition of the CDC37-HSP90 interaction and several other pathway regulators potently modulates the innate immune response to DNA and retroviral infection. [ABSTRACT FROM AUTHOR]

The tumor suppressor ARF inhibits cell growth in response to oncogenic stress in a p53-dependent manner. Also, there is an increasing appreciation of ARF's ability to inhibit cell growth via multiple p53-independent mechanisms, including its ability to regulate the E2F pathway. We have investigated the interaction between the tumor suppressor ARF and DP1, the DNA binding partner of the E2F family of factors (E2Fs). We show that ARF directly binds to DP1. Interestingly, binding of ARF to DP1 results in an inhibition of the interaction between DP1 and E2F1. Moreover, ARF regulates the association of DP1 with its target gene, as evidenced by a chromatin immunoprecipitation assay with the dhfr promoter. By analyzing a series of ARF mutants, we demonstrate a strong correlation between ARF's ability to regulate DP1 and its ability to cause cell cycle arrest. S-phase inhibition by ARF is preceded by an inhibition of the E2F-activated genes. Moreover, we provide evidence that ARF inhibits the E2F-activated genes independently of p53 and Mdm2. Also, the interaction between ARF and DP1 is enhanced during oncogenic stress and ‘culture shock.’ Taken together, our results show that DP1 is a critical direct target of ARF. [ABSTRACT FROM AUTHOR]

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