Chemical Biology of HIV-1 Nef

HIV-1 Nef 的化学生物学

• 批准号: 10684695
• 负责人: Thomas E. Smithgall
• 金额: $ 62.75万
• 依托单位: UNIVERSITY OF PITTSBURGH AT PITTSBURGH
• 依托单位国家: 美国
• 财政年份: 2020
• 资助国家: 美国
• 起止时间: 2020-09-01 至 2024-08-31
• 项目状态: 已结题
• 来源: https://reporter.nih.gov/project-details/10684695
• 关键词: 3-Dimensional; Acquired Immunodeficiency Syndrome; Affect; Anti-Retroviral Agents; Autologous; Binding; Binding Sites; Biological Assay; Biology; CD4 Positive T Lymphocytes; CD8-Positive T-Lymphocytes; Cell Surface Receptors; Cell surface; Cells; Chemicals; Coculture Techniques; Codon Nucleotides; Complement; Complex; Crystallography; Cytoplasmic Tail; Cytotoxic T-Lymphocytes; Data; Development; Down-Regulation; Drug Targeting; Effector Cell; Exclusion; Fluorescence; HIV; HIV Infections; HIV-1; HIV/AIDS; Immune; Immune system; In Vitro; Infection; Laboratories; Libraries; Life Cycle Stages; Ligand Binding; Link; Maps; Mediating; Methods; Molecular; Molecular Conformation; Mutagenesis; Mutation; Nucleotides; Patients; Peripheral Blood Mononuclear Cell; Pharmaceutical Chemistry; Pharmaceutical Preparations; Phosphotransferases; Protein Tyrosine Kinase; Proteins; Proteomics; Publishing; Receptor Down-Regulation; Reporter; Reporting; Role; SH3 Domains; Structure; Surface; System; Tail; Testing; Therapeutic; Transcription Factor AP-1; Triplet Multiple Birth; Viral; Viral reservoir; Virion; Virus; Virus Replication; Work; X-Ray Crystallography; antiretroviral therapy; clinical translation; cytotoxicity; deep sequencing; drug candidate; drug development; experimental study; ezrin; in vivo; inhibitor; innovation; insight; latent HIV reservoir; mutant; nef Protein; novel; novel strategies; novel therapeutic intervention; protein complex; receptor downregulation; recruit; relapse prevention; response; small molecule; src Homology Region 2 Domain; src-Family Kinases; therapeutic target; virtual

Summary. Existing antiretroviral drugs do not clear HIV-1 latent reservoirs, underscoring the urgent need for new therapeutic strategies. The HIV-1 Nef accessory factor is an attractive target for drug development because of its critical roles in the HIV-1 life cycle and immune system escape. Our group has discovered novel small molecules that bind directly to Nef and block many of its functions, including enhancement of viral infectivity and replication in donor PBMCs. Importantly, our Nef inhibitors rescue cell-surface MHC-I expression in latently infected, patient-derived CD4+ T-cells, enabling recognition and killing by autologous CTLs. Thus, Nef inhibitors represent an innovative approach to antiretroviral therapy that may provide a path to eradication of viral reservoirs. Our most promising class of inhibitors (hydroxypyrazoles) bind tightly to their Nef protein target in vitro and are active against multiple Nef functions in cell-based systems without cytotoxicity. Experiments proposed here will leverage these compounds as chemical probes to shed new light on Nef functions while unraveling their mechanism of action with the following Specific Aims: Aim 1. Map the binding site for hydroxy- pyrazole Nef inhibitors by X-ray crystallography. Preliminary and published data strongly suggest that hydroxy- pyrazole Nef inhibitors, which disrupt multiple Nef functions, may perturb the structure of functional Nef-effector complexes. X-ray crystallography of inhibitors with Nef alone and in complexes with host cell effector proteins will be used to test this idea and identify inhibitor binding sites. Aim 2. Identification of Nef residues essential for inhibitor action through in vitro selection. Using PCR-based saturation mutagenesis, we have replaced every codon in the Nef core region with each of the 64 nucleotide triplets in the context of HIV-1. CD4 T cells will be infected with the Nef mutant viral ‘library’ in the presence or absence of Nef inhibitors, and viral supernatants analyzed by deep sequencing to identify mutations enriched by inhibitor treatment. This method has the potential to identify Nef regions that allosterically influence inhibitor action in addition to residues directly involved in ligand binding. Aim 3. Explore the mechanisms by which Nef inhibitors suppress HIV-1 infectivity. Hydroxypyrazole Nef inhibitors reduce HIV-1 infectivity in TZM-bl reporter cells to the same extent as Nef-deleted viruses. This Aim will explore the whether Nef inhibitors restore virion incorporation of SERINC proteins and Ezrin, two host cell restriction factors linked to Nef. We will also pursue Nef inhibitor effects on overall HIV-1 protein composition by whole-virus proteomics, which has the potential to identify host cell factors that are uniquely incorporated (or excluded) by Nef inhibition. Aim 4. Investigate the mechanism of Nef inhibitor action on MHC-I downregulation. This Aim will explore the effect of Nef inhibitors on crystal structures of Nef in complexes with the MHC-I cyto- plasmic tail and the AP-1 µ1 subunit, interactions essential for immune escape. Inhibitor effects on Nef interac- tions with MHC-I and AP-1 will also be explored in cells using bimolecular fluorescence complementation (BiFC). These studies will clarify the mechanisms by which Nef inhibitors restore CTL responses to HIV infection.

总结。现有的抗逆转录病毒药物不能清除HIV-1潜伏库，因此迫切需要

项目成果

Inhibitors of HIV-1 Nef-Mediated Activation of the Myeloid Src-Family Kinase Hck Block HIV-1 Replication in Macrophages and Disrupt MHC-I Downregulation.

• DOI: 10.1021/acsinfecdis.1c00288
• 发表时间: 2022-01-14
• 期刊: ACS INFECTIOUS DISEASES
• 影响因子: 5.3
• 作者: Emert-Sedlak, Lori A.;Moukha-Chafiq, Omar;Shi, Haibin;Du, Shoucheng;Alvarado, John J.;Pathak, Vibha;Tanner, Samuel G.;Hunter, Robert N.;Nebane, Miranda;Chen, Li;Ilina, Tatiana, V;Ishima, Rieko;Zhang, Sixue;Kuzmichev, Yury, V;Wonderlich, Elizabeth R.;Schader, Susan M.;Augelli-Szafran, Corinne E.;Ptak, Roger G.;Smithgall, Thomas E.
• 通讯作者: Smithgall, Thomas E.

Antiretroviral Drug Discovery Targeting the HIV-1 Nef Virulence Factor.

靶向HIV-1 NEF毒力因子的抗逆转录病毒药物发现。

• DOI: 10.3390/v14092025
• 发表时间: 2022-09-13
• 期刊: Viruses
• 作者: Emert-Sedlak LA;Shi H;Tice CM;Chen L;Alvarado JJ;Shu ST;Du S;Thomas CE;Wrobel JE;Reitz AB;Smithgall TE
• 通讯作者: Smithgall TE

Visualization of Host Cell Kinase Activation by Viral Proteins Using GFP Fluorescence Complementation and Immunofluorescence Microscopy.

使用 GFP 荧光互补和免疫荧光显微镜观察病毒蛋白对宿主细胞激酶的激活。

• DOI: 10.21769/bioprotoc.4068
• 发表时间: 2021
• 期刊: Bio-protocol
• 影响因子: 0.8
• 作者: Shu,SherryT;Li,WingFai;Smithgall,ThomasE
• 通讯作者: Smithgall,ThomasE

Tight-Binding Hydroxypyrazole HIV-1 Nef Inhibitors Suppress Viral Replication in Donor Mononuclear Cells and Reverse Nef-Mediated MHC-I Downregulation.

• DOI: 10.1021/acsinfecdis.9b00382
• 发表时间: 2020-02-14
• 期刊: ACS infectious diseases
• 影响因子: 5.3
• 作者: Shi H;Tice CM;Emert-Sedlak L;Chen L;Li WF;Carlsen M;Wrobel JE;Reitz AB;Smithgall TE
• 通讯作者: Smithgall TE