Crystal structure of an antiviral ankyrin targeting the HIV-1 capsid and molecular modeling of the ankyrin-capsid complex
Ankyrins are cellular repeat proteins, which can be genetically modified to randomize amino-acid residues located at defined positions in each repeat unit, and thus create a potential binding surface adaptable to macromolecular ligands. From a phage-display library of artificial ankyrins, we have is...
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th-cmuir.6653943832-458152018-01-24T06:17:59Z Crystal structure of an antiviral ankyrin targeting the HIV-1 capsid and molecular modeling of the ankyrin-capsid complex Warachai Praditwongwan Phimonphan Chuankhayan Somphot Saoin Tanchanok Wisitponchai Vannajan Sanghiran Lee Sawitree Nangola Saw See Hong Philippe Minard Pierre Boulanger Chun Jung Chen Chatchai Tayapiwatana Ankyrins are cellular repeat proteins, which can be genetically modified to randomize amino-acid residues located at defined positions in each repeat unit, and thus create a potential binding surface adaptable to macromolecular ligands. From a phage-display library of artificial ankyrins, we have isolated Ank < sup > GAG < /sup > 1D4, a trimodular ankyrin which binds to the HIV-1 capsid protein N-terminal domain (NTD < sup > CA < /sup > ) and has an antiviral effect at the late steps of the virus life cycle. In this study, the determinants of the Ank < sup > GAG < /sup > 1D4-NTD < sup > CA < /sup > interaction were analyzed using peptide scanning in competition ELISA, capsid mutagenesis, ankyrin crystallography and molecular modeling. We determined the Ank < sup > GAG < /sup > 1D4 structure at 2.2 Å resolution, and used the crystal structure in molecular docking with a homology model of HIV-1 capsid. Our results indicated that NTD < sup > CA < /sup > alpha-helices H1 and H7 could mediate the formation of the capsid-Ank < sup > GAG < /sup > 1D4 binary complex, but the interaction involving H7 was predicted to be more stable than with H1. Arginine-18 (R18) in H1, and R132 and R143 in H7 were found to be the key players of the Ank < sup > GAG < /sup > 1D4-NTD < sup > CA < /sup > interaction. This was confirmed by R-to-A mutagenesis of NTD < sup > CA < /sup > , and by sequence analysis of trimodular ankyrins negative for capsid binding. In Ank < sup > GAG < /sup > 1D4, major interactors common to H1 and H7 were found to be S45, Y56, R89, K122 and K123. Collectively, our ankyrin-capsid binding analysis implied a significant degree of flexibility within the NTD < sup > CA < /sup > domain of the HIV-1 capsid protein, and provided some clues for the design of new antivirals targeting the capsid protein and viral assembly. © 2014 Springer International Publishing. 2018-01-24T06:17:59Z 2018-01-24T06:17:59Z 2014-01-01 Journal 15734951 0920654X 2-s2.0-84925284821 10.1007/s10822-014-9772-9 https://www.scopus.com/inward/record.uri?partnerID=HzOxMe3b&scp=84925284821&origin=inward http://cmuir.cmu.ac.th/jspui/handle/6653943832/45815 |
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Ankyrins are cellular repeat proteins, which can be genetically modified to randomize amino-acid residues located at defined positions in each repeat unit, and thus create a potential binding surface adaptable to macromolecular ligands. From a phage-display library of artificial ankyrins, we have isolated Ank < sup > GAG < /sup > 1D4, a trimodular ankyrin which binds to the HIV-1 capsid protein N-terminal domain (NTD < sup > CA < /sup > ) and has an antiviral effect at the late steps of the virus life cycle. In this study, the determinants of the Ank < sup > GAG < /sup > 1D4-NTD < sup > CA < /sup > interaction were analyzed using peptide scanning in competition ELISA, capsid mutagenesis, ankyrin crystallography and molecular modeling. We determined the Ank < sup > GAG < /sup > 1D4 structure at 2.2 Å resolution, and used the crystal structure in molecular docking with a homology model of HIV-1 capsid. Our results indicated that NTD < sup > CA < /sup > alpha-helices H1 and H7 could mediate the formation of the capsid-Ank < sup > GAG < /sup > 1D4 binary complex, but the interaction involving H7 was predicted to be more stable than with H1. Arginine-18 (R18) in H1, and R132 and R143 in H7 were found to be the key players of the Ank < sup > GAG < /sup > 1D4-NTD < sup > CA < /sup > interaction. This was confirmed by R-to-A mutagenesis of NTD < sup > CA < /sup > , and by sequence analysis of trimodular ankyrins negative for capsid binding. In Ank < sup > GAG < /sup > 1D4, major interactors common to H1 and H7 were found to be S45, Y56, R89, K122 and K123. Collectively, our ankyrin-capsid binding analysis implied a significant degree of flexibility within the NTD < sup > CA < /sup > domain of the HIV-1 capsid protein, and provided some clues for the design of new antivirals targeting the capsid protein and viral assembly. © 2014 Springer International Publishing. |
format |
Journal |
author |
Warachai Praditwongwan Phimonphan Chuankhayan Somphot Saoin Tanchanok Wisitponchai Vannajan Sanghiran Lee Sawitree Nangola Saw See Hong Philippe Minard Pierre Boulanger Chun Jung Chen Chatchai Tayapiwatana |
spellingShingle |
Warachai Praditwongwan Phimonphan Chuankhayan Somphot Saoin Tanchanok Wisitponchai Vannajan Sanghiran Lee Sawitree Nangola Saw See Hong Philippe Minard Pierre Boulanger Chun Jung Chen Chatchai Tayapiwatana Crystal structure of an antiviral ankyrin targeting the HIV-1 capsid and molecular modeling of the ankyrin-capsid complex |
author_facet |
Warachai Praditwongwan Phimonphan Chuankhayan Somphot Saoin Tanchanok Wisitponchai Vannajan Sanghiran Lee Sawitree Nangola Saw See Hong Philippe Minard Pierre Boulanger Chun Jung Chen Chatchai Tayapiwatana |
author_sort |
Warachai Praditwongwan |
title |
Crystal structure of an antiviral ankyrin targeting the HIV-1 capsid and molecular modeling of the ankyrin-capsid complex |
title_short |
Crystal structure of an antiviral ankyrin targeting the HIV-1 capsid and molecular modeling of the ankyrin-capsid complex |
title_full |
Crystal structure of an antiviral ankyrin targeting the HIV-1 capsid and molecular modeling of the ankyrin-capsid complex |
title_fullStr |
Crystal structure of an antiviral ankyrin targeting the HIV-1 capsid and molecular modeling of the ankyrin-capsid complex |
title_full_unstemmed |
Crystal structure of an antiviral ankyrin targeting the HIV-1 capsid and molecular modeling of the ankyrin-capsid complex |
title_sort |
crystal structure of an antiviral ankyrin targeting the hiv-1 capsid and molecular modeling of the ankyrin-capsid complex |
publishDate |
2018 |
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https://www.scopus.com/inward/record.uri?partnerID=HzOxMe3b&scp=84925284821&origin=inward http://cmuir.cmu.ac.th/jspui/handle/6653943832/45815 |
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1681422815460327424 |