SARS-CoV-2 is the causative agent of the current COVID-19 pandemic. A major virulence factor of SARS-CoVs is the nonstructural protein 1 (Nsp1) which suppresses host gene expression by ribosome association. Here, we show that Nsp1 from SARS-CoV-2 binds to the 40S ribosomal subunit, resulting in shutdown of mRNA translation both in vitro and in cells. Structural analysis by cryo-electron microscopy (cryo-EM) of in vitro reconstituted Nsp1-40S and various native Nsp1-40S and -80S complexes revealed that the Nsp1 C terminus binds to and obstructs the mRNA entry tunnel. Thereby, Nsp1 effectively blocks RIG-I-dependent innate immune responses that would otherwise facilitate clearance of the infection. Thus, the structural characterization of the inhibitory mechanism of Nsp1 may aid structure-based drug design against SARS-CoV-2.

SUMMARY Semen serves as a vehicle for HIV and promotes sexual transmission of the virus, which accounts for the majority of new HIV cases. The major component of semen is the coagulum, a viscous structure composed predominantly of spermatozoa and semenogelin proteins. Due to the activity of the semen protease PSA, the coagulum is liquefied and semenogelins are cleaved into smaller fragments. Here, we report that a subset of these semenogelin fragments form amyloid fibrils that greatly enhance HIV infection. Like SEVI, another amyloid fibril previously identified in semen, the semenogelin fibrils exhibit a cationic surface and enhance HIV virion attachment and entry. Whereas semen samples from healthy individuals greatly enhance HIV infection, semenogelin-deficient semen samples from patients with ejaculatory duct obstruction are completely deficient in enhancing activity. Semen thus harbors distinct amyloidogenic peptides derived from different precursor proteins that commonly enhance HIV infection and likely contribute to HIV transmission.

Highlights d Numerous SARS-CoV-2 proteins synergize to suppress immune sensing and signaling d Nsp14 targets IFNAR1 for lysosomal degradation d ORF3a and ORF7a block autophagy by different mechanisms d Synergistic treatment with IFN-g and -l1 is highly effective against SARS-CoV-2

SARS-CoV-2 is the causative agent of the current COVID-19 pandemic. A major virulence factor of SARS-CoVs is the nonstructural protein 1 (Nsp1) which suppresses host gene expression by ribosome association via an unknown mechanism. Here, we show that Nsp1 from SARS-CoV-2 binds to 40S and 80S ribosomes, resulting in shutdown of capped mRNA translation both in vitro and in cells. Structural analysis by cryo-electron microscopy (cryo-EM) of in vitro reconstituted Nsp1-40S and of native human Nsp1-ribosome complexes revealed that the Nsp1 C-terminus binds to and obstructs the mRNA entry tunnel. Thereby, Nsp1 effectively blocks RIG-Idependent innate immune responses that would otherwise facilitate clearance of the infection. Thus, the structural characterization of the inhibitory mechanism of Nsp1 may aid structure-based drug design against SARS-CoV-2.Coronaviruses (CoVs) are enveloped, single-stranded viruses

Guanylate binding proteins (GBPs) are an interferon (IFN)-inducible subfamily of guanosine triphosphatases (GTPases) with well-established activity against intracellular bacteria and parasites. Here we show that GBP5 potently restricts HIV-1 and other retroviruses. GBP5 is expressed in the primary target cells of HIV-1, where it impairs viral infectivity by interfering with the processing and virion incorporation of the viral envelope glycoprotein (Env). GBP5 levels in macrophages determine and inversely correlate with infectious HIV-1 yield over several orders of magnitude, which may explain the high donor variability in macrophage susceptibility to HIV. Antiviral activity requires Golgi localization of GBP5, but not its GTPase activity. Start codon mutations in the accessory vpu gene from macrophage-tropic HIV-1 strains conferred partial resistance to GBP5 inhibition by increasing Env expression. Our results identify GBP5 as an antiviral effector of the IFN response and may explain the increased frequency of defective vpu genes in primary HIV-1 strains.

SUMMARYNF-κB is essential for effective transcription of primate lentiviral genomes and also activates antiviral host genes. Here, we show that the early protein Nef of most primate lentiviruses enhances NF-κB activation. In contrast, the late protein Vpu of HIV-1 and its simian precursors inhibits activation of NF-κB, even in the presence of Nef. Although this effect of Vpu did not correlate with its ability to interact with β-TrCP, it involved the stabilization of IκB and reduced nuclear translocation of p65. Interestingly, however, Vpu did not affect casein kinase II-mediated phosphorylation of p65. Lack of Vpu was associated with increased NF-κB activation and induction of interferon and interferon-stimulated genes (ISGs) in HIV-1-infected T cells. Thus, HIV-1 and its simian precursors employ Nef to boost NF-κB activation early during the viral life cycle to initiate proviral transcription, while Vpu is used to downmodulate NF-κB-dependent expression of ISGs at later stages.

i Previous studies have shown that sera from HIV-1-infected individuals contain antibodies able to mediate antibody-dependent cellular cytotoxicity (ADCC). These antibodies preferentially recognize envelope glycoprotein (Env) epitopes induced upon CD4 binding. Here, we show that a highly conserved tryptophan at position 69 of the gp120 inner domain is important for ADCC mediated by anti-cluster A antibodies and sera from HIV-1-infected individuals. Human immunodeficiency virus type 1 (HIV-1) infection elicits a potent B cell response resulting in the production of antibodies (Abs) against the envelope glycoproteins (Env), which are exposed at the surface of viral particles and infected cells (1). We recently reported that these antibodies have the potential to eliminate HIV-1-infected cells by mediating antibody-dependent cellular cytotoxicity (ADCC) (2, 3). We found that these nonneutralizing CD4-induced (CD4i) ADCC-mediating antibodies are present in sera (2, 4), breast milk (4), and cervicovaginal lavage fluid (3, 4) of HIV-1-infected individuals and preferentially target Env in its CD4-bound "open" conformation. However, in order to evade ADCC responses, HIV-1 has developed a highly sophisticated strategy to keep Env at the surface of infected cells in the unbound "closed" conformation. HIV-1 accomplishes this through its accessory proteins Nef and Vpu, which decrease the overall amount of Env (via Vpu-mediated BST-2 downregulation) and CD4 at the cell surface (2, 5-7). In addition, decreased amounts of Env at the cell surface due to efficient internalization also help the virus to avoid ADCC responses (8). In agreement with the necessity for HIV-1 to avoid exposing Env in the CD4-bound conformation, we recently showed that forcing Env to adopt this conformation with small CD4 mimetics (CD4mc) sensitizes HIV-1-infected cells to ADCC mediated by sera, breast milk, and cervicovaginal fluids from HIV-1-infected subjects (4).Previous studies showed that the human monoclonal antibody (MAb) A32 targets an ADCC epitope commonly detected by antibodies present in sera from HIV-1-infected individuals (2, 5, 9, 10). Accordingly, an A32 Fab fragment blocked the majority of ADCC-mediating antibody (Ab) activity in plasma from chronically HIV-1-infected individuals (9). A subsequent study showed that the majority of ADCC responses were targeted against the gp120 core but not its variable regions V1, V2, V3, and V5 (2). Here, we evaluated the ADCC-mediating capacity of a panel of human antibodies targeting several well-defined epitopes in gp120 and gp41 and sera from randomly selected chronically HIV-1 clade B-infected individuals (HIV ϩ sera).We infected CEM.NKr cells with a panel of HIV-1 NL4.3-green fluorescent protein (GFP) constructs containing the ADA-Env and either wild-type or defective nef and vpu genes, as described previously (2, 5). Furthermore, we examined a wellcharacterized infectious molecular HIV-1 clone constructed from a transmitted/founder (T/F) virus (CH77) (11-14) containing intact or defective nef an...

Highlights d IFI16 targets Sp1 to restrict HIV-1 transcription and LINE-1 retrotransposition d The N-terminal pyrin and NLS domains of IFI16 are sufficient for restriction d Sp1 inhibition by IFI16 or Mithramycin A suppresses reactivation of latent HIV-1 d Murine homologs of IFI16 restrict retroviral replication in vitro and in vivo