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  1. Article ; Online: Specific Binding of Alzheimer's Aβ Peptides to Extracellular Vesicles.

    Coughlan, Christina / Lindenberger, Jared / Jacot, Jeffrey G / Johnson, Noah R / Anton, Paige / Bevers, Shaun / Welty, Robb / Graner, Michael W / Potter, Huntington

    International journal of molecular sciences

    2024  Volume 25, Issue 7

    Abstract: Alzheimer's disease (AD) is the fifth leading cause of death among adults aged 65 and older, yet the onset and progression of the disease is poorly understood. What is known is that the presence of amyloid, particularly polymerized Aβ42, defines when ... ...

    Abstract Alzheimer's disease (AD) is the fifth leading cause of death among adults aged 65 and older, yet the onset and progression of the disease is poorly understood. What is known is that the presence of amyloid, particularly polymerized Aβ42, defines when people are on the AD continuum. Interestingly, as AD progresses, less Aβ42 is detectable in the plasma, a phenomenon thought to result from Aβ becoming more aggregated in the brain and less Aβ42 and Aβ40 being transported from the brain to the plasma via the CSF. We propose that extracellular vesicles (EVs) play a role in this transport. EVs are found in bodily fluids such as blood, urine, and cerebrospinal fluid and carry diverse "cargos" of bioactive molecules (e.g., proteins, nucleic acids, lipids, metabolites) that dynamically reflect changes in the cells from which they are secreted. While Aβ42 and Aβ40 have been reported to be present in EVs, it is not known whether this interaction is specific for these peptides and thus whether amyloid-carrying EVs play a role in AD and/or serve as brain-specific biomarkers of the AD process. To determine if there is a specific interaction between Aβ and EVs, we used isothermal titration calorimetry (ITC) and discovered that Aβ42 and Aβ40 bind to EVs in a manner that is sequence specific, saturable, and endothermic. In addition, Aβ incubation with EVs overnight yielded larger amounts of bound Aβ peptide that was fibrillar in structure. These findings point to a specific amyloid-EV interaction, a potential role for EVs in the transport of amyloid from the brain to the blood, and a role for this amyloid pool in the AD process.
    MeSH term(s) Adult ; Humans ; Alzheimer Disease ; Peptides ; Extracellular Vesicles ; Amyloidogenic Proteins ; Plasma
    Chemical Substances Peptides ; Amyloidogenic Proteins
    Language English
    Publishing date 2024-03-26
    Publishing country Switzerland
    Document type Journal Article
    ZDB-ID 2019364-6
    ISSN 1422-0067 ; 1422-0067 ; 1661-6596
    ISSN (online) 1422-0067
    ISSN 1422-0067 ; 1661-6596
    DOI 10.3390/ijms25073703
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  2. Article ; Online: The

    Jayasinghe, Yahani P / Banco, Michael T / Lindenberger, Jared J / Favrot, Lorenza / Palčeková, Zuzana / Jackson, Mary / Manabe, Shino / Ronning, Donald R

    RSC medicinal chemistry

    2023  Volume 14, Issue 3, Page(s) 491–500

    Abstract: ... ...

    Abstract Mycothiol
    Language English
    Publishing date 2023-01-26
    Publishing country England
    Document type Journal Article
    ISSN 2632-8682
    ISSN (online) 2632-8682
    DOI 10.1039/d2md00401a
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  3. Article: SARS-CoV-2 Omicron XBB lineage spike structures, conformations, antigenicity, and receptor recognition.

    Zhang, Qianyi E / Lindenberger, Jared / Parsons, Ruth / Thakur, Bhishem / Parks, Rob / Park, Chan Soo / Huang, Xiao / Sammour, Salam / Janowska, Katarzyna / Spence, Taylor N / Edwards, Robert J / Martin, Mitchell / Williams, Wilton B / Gobeil, Sophie / Montefiori, David C / Korber, Bette / Saunders, Kevin O'Neil / Haynes, Barton F / Henderson, Rory /
    Acharya, Priyamvada

    bioRxiv : the preprint server for biology

    2024  

    Abstract: A recombinant lineage of the SARS-CoV-2 Omicron variant, named XBB, appeared in late 2022 and evolved descendants that successively swept local and global populations. XBB lineage members were noted for their improved immune evasion and transmissibility. ...

    Abstract A recombinant lineage of the SARS-CoV-2 Omicron variant, named XBB, appeared in late 2022 and evolved descendants that successively swept local and global populations. XBB lineage members were noted for their improved immune evasion and transmissibility. Here, we determine cryo-EM structures of XBB.1.5, XBB.1.16, EG.5 and EG.5.1 spike (S) ectodomains to reveal reinforced 3-RBD-down receptor inaccessible closed states mediated by interprotomer receptor binding domain (RBD) interactions previously observed in BA.1 and BA.2. Improved XBB.1.5 and XBB.1.16 RBD stability compensated for stability loss caused by early Omicron mutations, while the F456L substitution reduced EG.5 RBD stability. S1 subunit mutations had long-range impacts on conformation and epitope presentation in the S2 subunit. Our results reveal continued S protein evolution via simultaneous optimization of multiple parameters including stability, receptor binding and immune evasion, and the dramatic effects of relatively few residue substitutions in altering the S protein conformational landscape.
    Language English
    Publishing date 2024-03-12
    Publishing country United States
    Document type Preprint
    DOI 10.1101/2024.02.12.580004
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  4. Article ; Online: A novel anti-human IL-1R7 antibody reduces IL-18-mediated inflammatory signaling.

    Li, Suzhao / Jiang, Liqiong / Beckmann, Karsten / Højen, Jesper Falkesgaard / Pessara, Ulrich / Powers, Nicholas E / de Graaf, Dennis M / Azam, Tania / Lindenberger, Jared / Eisenmesser, Elan Z / Fischer, Stephan / Dinarello, Charles A

    The Journal of biological chemistry

    2021  Volume 296, Page(s) 100630

    Abstract: Unchecked inflammation can result in severe diseases with high mortality, such as macrophage activation syndrome (MAS). MAS and associated cytokine storms have been observed in COVID-19 patients exhibiting systemic hyperinflammation. Interleukin-18 (IL- ... ...

    Abstract Unchecked inflammation can result in severe diseases with high mortality, such as macrophage activation syndrome (MAS). MAS and associated cytokine storms have been observed in COVID-19 patients exhibiting systemic hyperinflammation. Interleukin-18 (IL-18), a proinflammatory cytokine belonging to the IL-1 family, is elevated in both MAS and COVID-19 patients, and its level is known to correlate with the severity of COVID-19 symptoms. IL-18 binds its specific receptor IL-1 receptor 5 (IL-1R5, also known as IL-18 receptor alpha chain), leading to the recruitment of the coreceptor, IL-1 receptor 7 (IL-1R7, also known as IL-18 receptor beta chain). This heterotrimeric complex then initiates downstream signaling, resulting in systemic and local inflammation. Here, we developed a novel humanized monoclonal anti-IL-1R7 antibody to specifically block the activity of IL-18 and its inflammatory signaling. We characterized the function of this antibody in human cell lines, in freshly obtained peripheral blood mononuclear cells (PBMCs) and in human whole blood cultures. We found that the anti-IL-1R7 antibody significantly suppressed IL-18-mediated NFκB activation, reduced IL-18-stimulated IFNγ and IL-6 production in human cell lines, and reduced IL-18-induced IFNγ, IL-6, and TNFα production in PBMCs. Moreover, the anti-IL-1R7 antibody significantly inhibited LPS- and Candida albicans-induced IFNγ production in PBMCs, as well as LPS-induced IFNγ production in whole blood cultures. Our data suggest that blocking IL-1R7 could represent a potential therapeutic strategy to specifically modulate IL-18 signaling and may warrant further investigation into its clinical potential for treating IL-18-mediated diseases, including MAS and COVID-19.
    MeSH term(s) Anti-Inflammatory Agents/metabolism ; Anti-Inflammatory Agents/pharmacology ; Antibodies, Monoclonal/biosynthesis ; Antibodies, Monoclonal/pharmacology ; Antibodies, Neutralizing/biosynthesis ; Antibodies, Neutralizing/pharmacology ; COVID-19/drug therapy ; Candida albicans/growth & development ; Candida albicans/pathogenicity ; Gene Expression Regulation ; HEK293 Cells ; Humans ; Immunologic Factors/biosynthesis ; Immunologic Factors/pharmacology ; Inflammation ; Interferon-gamma/genetics ; Interferon-gamma/immunology ; Interleukin-18/genetics ; Interleukin-18/immunology ; Interleukin-6/genetics ; Interleukin-6/immunology ; Leukocytes, Mononuclear/drug effects ; Leukocytes, Mononuclear/immunology ; Leukocytes, Mononuclear/microbiology ; Lipopolysaccharides/antagonists & inhibitors ; Lipopolysaccharides/pharmacology ; Macrophage Activation Syndrome/drug therapy ; NF-kappa B/genetics ; NF-kappa B/immunology ; Primary Cell Culture ; Receptors, Interleukin-18/antagonists & inhibitors ; Receptors, Interleukin-18/genetics ; Receptors, Interleukin-18/immunology ; SARS-CoV-2/immunology ; SARS-CoV-2/pathogenicity ; Signal Transduction/drug effects ; Tumor Necrosis Factor-alpha/genetics ; Tumor Necrosis Factor-alpha/immunology
    Chemical Substances Anti-Inflammatory Agents ; Antibodies, Monoclonal ; Antibodies, Neutralizing ; IL6 protein, human ; Immunologic Factors ; Interleukin-18 ; Interleukin-6 ; Lipopolysaccharides ; NF-kappa B ; Receptors, Interleukin-18 ; Tumor Necrosis Factor-alpha ; Interferon-gamma (82115-62-6)
    Language English
    Publishing date 2021-04-03
    Publishing country United States
    Document type Journal Article ; Research Support, N.I.H., Extramural
    ZDB-ID 2997-x
    ISSN 1083-351X ; 0021-9258
    ISSN (online) 1083-351X
    ISSN 0021-9258
    DOI 10.1016/j.jbc.2021.100630
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  5. Article ; Online: A highly potent and safe pyrrolopyridine-based allosteric HIV-1 integrase inhibitor targeting host LEDGF/p75-integrase interaction site.

    Maehigashi, Tatsuya / Ahn, Seohyun / Kim, Uk-Il / Lindenberger, Jared / Oo, Adrian / Koneru, Pratibha C / Mahboubi, Bijan / Engelman, Alan N / Kvaratskhelia, Mamuka / Kim, Kyungjin / Kim, Baek

    PLoS pathogens

    2021  Volume 17, Issue 7, Page(s) e1009671

    Abstract: Allosteric integrase inhibitors (ALLINIs) are a class of experimental anti-HIV agents that target the noncatalytic sites of the viral integrase (IN) and interfere with the IN-viral RNA interaction during viral maturation. Here, we report a highly potent ... ...

    Abstract Allosteric integrase inhibitors (ALLINIs) are a class of experimental anti-HIV agents that target the noncatalytic sites of the viral integrase (IN) and interfere with the IN-viral RNA interaction during viral maturation. Here, we report a highly potent and safe pyrrolopyridine-based ALLINI, STP0404, displaying picomolar IC50 in human PBMCs with a >24,000 therapeutic index against HIV-1. X-ray structural and biochemical analyses revealed that STP0404 binds to the host LEDGF/p75 protein binding pocket of the IN dimer, which induces aberrant IN oligomerization and blocks the IN-RNA interaction. Consequently, STP0404 inhibits proper localization of HIV-1 RNA genomes in viral particles during viral maturation. Y99H and A128T mutations at the LEDGF/p75 binding pocket render resistance to STP0404. Extensive in vivo pharmacological and toxicity investigations demonstrate that STP0404 harbors outstanding therapeutic and safety properties. Overall, STP0404 is a potent and first-in-class ALLINI that targets LEDGF/p75 binding site and has advanced to a human trial.
    MeSH term(s) Allosteric Regulation/drug effects ; Animals ; Dogs ; HIV Infections/drug therapy ; HIV Integrase Inhibitors/pharmacology ; HIV-1/drug effects ; Humans ; Intercellular Signaling Peptides and Proteins/metabolism ; Rats ; Rats, Sprague-Dawley ; Virus Replication/drug effects
    Chemical Substances HIV Integrase Inhibitors ; Intercellular Signaling Peptides and Proteins ; lens epithelium-derived growth factor
    Language English
    Publishing date 2021-07-22
    Publishing country United States
    Document type Journal Article ; Research Support, N.I.H., Extramural ; Research Support, Non-U.S. Gov't
    ZDB-ID 2205412-1
    ISSN 1553-7374 ; 1553-7374
    ISSN (online) 1553-7374
    ISSN 1553-7374
    DOI 10.1371/journal.ppat.1009671
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  6. Article ; Online: Sec24C is an HIV-1 host dependency factor crucial for virus replication.

    Rebensburg, Stephanie V / Wei, Guochao / Larue, Ross C / Lindenberger, Jared / Francis, Ashwanth C / Annamalai, Arun S / Morrison, James / Shkriabai, Nikoloz / Huang, Szu-Wei / KewalRamani, Vineet / Poeschla, Eric M / Melikyan, Gregory B / Kvaratskhelia, Mamuka

    Nature microbiology

    2021  Volume 6, Issue 4, Page(s) 435–444

    Abstract: Early events of the human immunodeficiency virus 1 (HIV-1) lifecycle, such as post-entry virus trafficking, uncoating and nuclear import, are poorly characterized because of limited understanding of virus-host interactions. Here, we used mass ... ...

    Abstract Early events of the human immunodeficiency virus 1 (HIV-1) lifecycle, such as post-entry virus trafficking, uncoating and nuclear import, are poorly characterized because of limited understanding of virus-host interactions. Here, we used mass spectrometry-based proteomics to delineate cellular binding partners of curved HIV-1 capsid lattices and identified Sec24C as an HIV-1 host dependency factor. Gene deletion and complementation in Jurkat cells revealed that Sec24C facilitates infection and markedly enhances HIV-1 spreading infection. Downregulation of Sec24C in HeLa cells substantially reduced HIV-1 core stability and adversely affected reverse transcription, nuclear import and infectivity. Live-cell microscopy showed that Sec24C co-trafficked with HIV-1 cores in the cytoplasm during virus ingress. Biochemical assays demonstrated that Sec24C directly and specifically interacted with hexameric capsid lattices. A 2.3-Å resolution crystal structure of Sec24C
    MeSH term(s) Active Transport, Cell Nucleus ; Amino Acid Motifs ; Binding Sites ; Capsid/metabolism ; Cell Nucleus/metabolism ; Cytoplasm/metabolism ; HIV-1/metabolism ; HIV-1/physiology ; Host-Pathogen Interactions ; Humans ; Lentiviruses, Primate/metabolism ; Lentiviruses, Primate/physiology ; Nuclear Pore/metabolism ; Protein Binding ; Reverse Transcription ; Structure-Activity Relationship ; Vesicular Transport Proteins/chemistry ; Vesicular Transport Proteins/genetics ; Vesicular Transport Proteins/metabolism ; Virus Integration ; Virus Replication
    Chemical Substances SEC24C protein, human ; Vesicular Transport Proteins
    Language English
    Publishing date 2021-03-01
    Publishing country England
    Document type Journal Article ; Research Support, N.I.H., Extramural
    ISSN 2058-5276
    ISSN (online) 2058-5276
    DOI 10.1038/s41564-021-00868-1
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  7. Article ; Online: Correction: Zwitterionic pyrrolidene-phosphonates: inhibitors of the glycoside hydrolase-like phosphorylase Streptomyces coelicolor GlgEI-V279S.

    Veleti, Sri Kumar / Petit, Cecile / Lindenberger, Jared J / Ronning, Donald R / Sucheck, Steven J

    Organic & biomolecular chemistry

    2017  Volume 15, Issue 31, Page(s) 6679

    Abstract: Correction for 'Zwitterionic pyrrolidene-phosphonates: inhibitors of the glycoside hydrolase-like phosphorylase Streptomyces coelicolor GlgEI-V279S' by Sri Kumar Veleti et al., Org. Biomol. Chem., 2017, 15, 3884-3891. ...

    Abstract Correction for 'Zwitterionic pyrrolidene-phosphonates: inhibitors of the glycoside hydrolase-like phosphorylase Streptomyces coelicolor GlgEI-V279S' by Sri Kumar Veleti et al., Org. Biomol. Chem., 2017, 15, 3884-3891.
    Language English
    Publishing date 2017-07-27
    Publishing country England
    Document type Journal Article ; Published Erratum
    ZDB-ID 2097583-1
    ISSN 1477-0539 ; 1477-0520
    ISSN (online) 1477-0539
    ISSN 1477-0520
    DOI 10.1039/c7ob90121f
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  8. Article ; Online: Zwitterionic pyrrolidene-phosphonates: inhibitors of the glycoside hydrolase-like phosphorylase Streptomyces coelicolor GlgEI-V279S.

    Veleti, Sri Kumar / Petit, Cecile / Lindenberger, Jared J / Ronning, Donald R / Sucheck, Steven J

    Organic & biomolecular chemistry

    2017  Volume 15, Issue 18, Page(s) 3884–3891

    Abstract: We synthesized and evaluated new zwitterionic inhibitors against glycoside hydrolase-like phosphorylase Streptomyces coelicolor (Sco) GlgEI-V279S which plays a role in α-glucan biosynthesis. Sco GlgEI-V279S serves as a model enzyme for validated anti- ... ...

    Abstract We synthesized and evaluated new zwitterionic inhibitors against glycoside hydrolase-like phosphorylase Streptomyces coelicolor (Sco) GlgEI-V279S which plays a role in α-glucan biosynthesis. Sco GlgEI-V279S serves as a model enzyme for validated anti-tuberculosis (TB) target Mycobacterium tuberculosis (Mtb) GlgE. Pyrrolidine inhibitors 5 and 6 were designed based on transition state considerations and incorporate a phosphonate on the pyrrolidine moiety to expand the interaction network between the inhibitor and the enzyme active site. Compounds 5 and 6 inhibited Sco GlgEI-V279S with K
    MeSH term(s) Drug Design ; Enzyme Inhibitors/chemistry ; Enzyme Inhibitors/pharmacology ; Glycoside Hydrolases/antagonists & inhibitors ; Models, Molecular ; Organophosphonates/chemistry ; Phosphorylases/antagonists & inhibitors ; Phosphorylases/chemistry ; Protein Conformation ; Pyrroles/chemistry ; Pyrroles/pharmacology ; Streptomyces coelicolor/enzymology
    Chemical Substances Enzyme Inhibitors ; Organophosphonates ; Pyrroles ; Phosphorylases (EC 2.4.1.-) ; Glycoside Hydrolases (EC 3.2.1.-)
    Language English
    Publishing date 2017-04-18
    Publishing country England
    Document type Journal Article
    ZDB-ID 2097583-1
    ISSN 1477-0539 ; 1477-0520
    ISSN (online) 1477-0539
    ISSN 1477-0520
    DOI 10.1039/c7ob00388a
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  9. Article ; Online: SARS-CoV-2 Omicron XBB lineage spike structures, conformations, antigenicity, and receptor recognition

    Zhang, Qianyi E. / Lindenberger, Jared / Parsons, Ruth J. / Thakur, Bhishem / Parks, Rob / Park, Chan Soo / Huang, Xiao / Sammour, Salam / Janowska, Katarzyna / Spence, Taylor N. / Edwards, Robert J / Martin, Mitchell / Williams, Wilton B. / Gobeil, Sophie / Montefiori, David C. / Korber, Bette / Saunders, Kevin / Haynes, Barton F. / Henderson, Rory /
    Acharya, Priyamvada

    bioRxiv

    Abstract: A recombinant lineage of the SARS-CoV-2 Omicron variant, named XBB, appeared in late 2022 and evolved descendants that successively swept local and global populations. XBB lineage members were noted for their improved immune evasion and transmissibility. ...

    Abstract A recombinant lineage of the SARS-CoV-2 Omicron variant, named XBB, appeared in late 2022 and evolved descendants that successively swept local and global populations. XBB lineage members were noted for their improved immune evasion and transmissibility. Here, we determine cryo-EM structures of XBB.1.5, XBB.1.16 and EG.5 spike (S) ectodomains to reveal enhanced occupancy of the receptor inaccessible closed state. Interprotomer receptor binding domain (RBD) interactions previously observed in BA.1 and BA.2 were retained to reinforce the 3-RBD-down state. Improved stability of XBB.1.5 and XBB.1.16 RBD compensated for loss of stability caused by early Omicron mutations, while the F456L substitution reduced EG.5 RBD stability. Long-range impacts of S1 subunit mutations affected conformation and epitope presentation in the S2 subunit. Taken together, our results feature a theme of iterative optimization of S protein stability as Omicron continues to evolve, while maintaining high affinity receptor binding and bolstering immune evasion.
    Keywords covid19
    Language English
    Publishing date 2024-02-13
    Publisher Cold Spring Harbor Laboratory
    Document type Article ; Online
    DOI 10.1101/2024.02.12.580004
    Database COVID19

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  10. Article ; Online: SARS-CoV-2 Omicron lineage XBB spike structures, conformations, antigenicity, and receptor recognition

    Zhang, Qianyi E / Lindenberger, Jared / Parsons, Ruth / Thakur, Bhishem / Parks, Rob / Park, Chan Soo / Huang, Xiao / Sammour, Salam / Janowska, Katarzyna / Spence, Taylor N / Edwards, Robert J. / Martin, Mitchell / Williams, Wilton B / Gobeil, Sophie / Montefiori, David C / Korber, Bette / Saunders, Kevin O'Neil / Haynes, Barton F / Haynes, Barton F. /
    Henderson, Rory / Acharya, Priyamvada

    bioRxiv

    Abstract: A recombinant lineage of the SARS-CoV-2 Omicron variant, named XBB, appeared in late 2022 and evolved descendants that successively swept local and global populations. XBB lineage members were noted for their improved immune evasion and transmissibility. ...

    Abstract A recombinant lineage of the SARS-CoV-2 Omicron variant, named XBB, appeared in late 2022 and evolved descendants that successively swept local and global populations. XBB lineage members were noted for their improved immune evasion and transmissibility. Here, we determine cryo-EM structures of XBB.1.5, XBB.1.16 and EG.5 spike (S) ectodomains to reveal enhanced occupancy of the receptor inaccessible closed state. Interprotomer receptor binding domain (RBD) interactions previously observed in BA.1 and BA.2 were retained to reinforce the 3-RBD-down state. Improved stability of XBB.1.5 and XBB.1.16 RBD compensated for loss of stability caused by early Omicron mutations, while the F456L substitution reduced EG.5 RBD stability. Long-range impacts of S1 subunit mutations affected conformation and epitope presentation in the S2 subunit. Taken together, our results feature a theme of iterative optimization of S protein stability as Omicron continues to evolve, while maintaining high affinity receptor binding and bolstering immune evasion.
    Keywords covid19
    Language English
    Publishing date 2024-02-13
    Publisher Cold Spring Harbor Laboratory
    Document type Article ; Online
    DOI 10.1101/2024.02.12.580004
    Database COVID19

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