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Sevy AM, Gilchuk IM, Brown BP, Bozhanova NG, Nargi R, Jensen M, Meiler J, Crowe JE. Computationally Designed Cyclic Peptides Derived from an Antibody Loop Increase Breadth of Binding for Influenza Variants. Structure 2020; 28:1114-1123.e4. [PMID: 32610044 DOI: 10.1016/j.str.2020.04.005] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/19/2019] [Revised: 02/12/2020] [Accepted: 04/06/2020] [Indexed: 01/12/2023]
Abstract
The influenza hemagglutinin (HA) glycoprotein is the target of many broadly neutralizing antibodies. However, influenza viruses can rapidly escape antibody recognition by mutation of hypervariable regions of HA that overlap with the binding epitope. We hypothesized that by designing peptides to mimic antibody loops, we could enhance breadth of binding to HA antigenic variants by reducing contact with hypervariable residues on HA that mediate escape. We designed cyclic peptides that mimic the heavy-chain complementarity-determining region 3 (CDRH3) of anti-influenza broadly neutralizing antibody C05 and show that these peptides bound to HA molecules with <100 nM affinity, comparable with that of the full-length parental C05 IgG. In addition, these peptides exhibited increased breadth of recognition to influenza H4 and H7 subtypes by eliminating clashes between the hypervariable antigenic regions and the antibody CDRH1 loop. This approach can be used to generate antibody-derived peptides against a wide variety of targets.
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Affiliation(s)
- Alexander M Sevy
- Chemical & Physical Biology Program, Vanderbilt University, Nashville, TN 37235, USA; Center for Structural Biology, Vanderbilt University, Nashville, TN 37235, USA; Vanderbilt Vaccine Center, Vanderbilt University Medical Center, Nashville, TN 37232, USA
| | - Iuliia M Gilchuk
- Vanderbilt Vaccine Center, Vanderbilt University Medical Center, Nashville, TN 37232, USA
| | - Benjamin P Brown
- Chemical & Physical Biology Program, Vanderbilt University, Nashville, TN 37235, USA; Center for Structural Biology, Vanderbilt University, Nashville, TN 37235, USA
| | - Nina G Bozhanova
- Center for Structural Biology, Vanderbilt University, Nashville, TN 37235, USA; Department of Chemistry, Vanderbilt University, Nashville, TN 37235, USA
| | - Rachel Nargi
- Vanderbilt Vaccine Center, Vanderbilt University Medical Center, Nashville, TN 37232, USA
| | - Mattie Jensen
- Vanderbilt Vaccine Center, Vanderbilt University Medical Center, Nashville, TN 37232, USA
| | - Jens Meiler
- Chemical & Physical Biology Program, Vanderbilt University, Nashville, TN 37235, USA; Center for Structural Biology, Vanderbilt University, Nashville, TN 37235, USA; Department of Chemistry, Vanderbilt University, Nashville, TN 37235, USA.
| | - James E Crowe
- Chemical & Physical Biology Program, Vanderbilt University, Nashville, TN 37235, USA; Vanderbilt Vaccine Center, Vanderbilt University Medical Center, Nashville, TN 37232, USA; Department of Pediatrics, Vanderbilt University Medical Center, Nashville, TN 37232, USA.
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Kiran P, Bhatia S, Lauster D, Aleksić S, Fleck C, Peric N, Maison W, Liese S, Keller BG, Herrmann A, Haag R. Exploring Rigid and Flexible Core Trivalent Sialosides for Influenza Virus Inhibition. Chemistry 2018; 24:19373-19385. [PMID: 30295350 PMCID: PMC6587447 DOI: 10.1002/chem.201804826] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/22/2018] [Indexed: 12/25/2022]
Abstract
Herein, the chemical synthesis and binding analysis of functionalizable rigid and flexible core trivalent sialosides bearing oligoethylene glycol (OEG) spacers interacting with spike proteins of influenza A virus (IAV) X31 is described. Although the flexible Tris-based trivalent sialosides achieved micromolar binding constants, a trivalent binder based on a rigid adamantane core dominated flexible tripodal compounds with micromolar binding and hemagglutination inhibition constants. Simulation studies indicated increased conformational penalties for long OEG spacers. Using a systematic approach with molecular modeling and simulations as well as biophysical analysis, these findings emphasize on the importance of the scaffold rigidity and the challenges associated with the spacer length optimization.
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Affiliation(s)
- Pallavi Kiran
- Institut für Chemie und Biochemie Organische ChemieFreie Universität BerlinTakustr. 314195BerlinGermany
| | - Sumati Bhatia
- Institut für Chemie und Biochemie Organische ChemieFreie Universität BerlinTakustr. 314195BerlinGermany
| | - Daniel Lauster
- Institut für Biologie, Molekulare Biophysik, IRI Life SciencesHumboldt-Universität zu BerlinInvalidenstr. 4210115BerlinGermany
| | - Stevan Aleksić
- Institut für Chemie und Biochemie, Physikalische und Theoretische ChemieFreie Universität BerlinTakustr. 314195BerlinGermany
| | - Carsten Fleck
- Fachbereich ChemieInstitut für PharmazieUniversität HamburgBundesstr. 4520146HamburgGermany
| | - Natalija Peric
- Fachbereich ChemieInstitut für PharmazieUniversität HamburgBundesstr. 4520146HamburgGermany
| | - Wolfgang Maison
- Fachbereich ChemieInstitut für PharmazieUniversität HamburgBundesstr. 4520146HamburgGermany
| | - Susanne Liese
- Department of MathematicsUniversity of Oslo, P.O Box1053 Blinder0316OsloNorway
- Department of PhysicsFreie Universität BerlinArnimallee 1414195BerlinGermany
| | - Bettina G. Keller
- Institut für Chemie und Biochemie, Physikalische und Theoretische ChemieFreie Universität BerlinTakustr. 314195BerlinGermany
| | - Andreas Herrmann
- Institut für Biologie, Molekulare Biophysik, IRI Life SciencesHumboldt-Universität zu BerlinInvalidenstr. 4210115BerlinGermany
| | - Rainer Haag
- Institut für Chemie und Biochemie Organische ChemieFreie Universität BerlinTakustr. 314195BerlinGermany
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