Deciphering critical amino acid residues to modify and enhance the binding affinity of ankyrin scaffold specific to capsid protein of human immunodeficiency virus type 1
Background: Ank GAG 1D4 is an artificial ankyrin repeat protein which recognizes the capsid protein (CA) of the human immunodeficiency virus type 1 (HIV-1) and exhibits the intracellular antiviral activity on the viral assembly process. Improving the binding affinity of Ank GAG 1D4 would potentially...
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Allergy and Immunology Society of Thailand
2017
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| author | Saoin, Somphot Wisitponchai, Tanchanok Intachai, Kannaporn Chupradit, Koollawat Moonmuang, Sutpirat Nangola, Sawitree Kitidee, Kuntida Fanhchaksai, Kanda Lee, Vannajan Sanghiran Hong, Saw See Boulanger, Pierre Chuankhayan, Phimonphan Chen, Chun Jung Tayapiwatana, Chatchai |
| author_facet | Saoin, Somphot Wisitponchai, Tanchanok Intachai, Kannaporn Chupradit, Koollawat Moonmuang, Sutpirat Nangola, Sawitree Kitidee, Kuntida Fanhchaksai, Kanda Lee, Vannajan Sanghiran Hong, Saw See Boulanger, Pierre Chuankhayan, Phimonphan Chen, Chun Jung Tayapiwatana, Chatchai |
| author_sort | Saoin, Somphot |
| collection | UM |
| description | Background: Ank GAG 1D4 is an artificial ankyrin repeat protein which recognizes the capsid protein (CA) of the human immunodeficiency virus type 1 (HIV-1) and exhibits the intracellular antiviral activity on the viral assembly process. Improving the binding affinity of Ank GAG 1D4 would potentially enhance the Ank GAG 1D4-mediated antiviral activity. Objective: To augment the affinity of Ank GAG 1D4 scaffold towards its CA target, through computational predictions and experimental designs. Method: Three dimensional structure of the binary complex formed by Ank GAG 1D4 docked to the CA was used as a model for van der Waals (vdW) binding energy calculation. The results generated a simple guideline to select the amino acids for modifications. Following the predictions, modified Ank GAG 1D4 proteins were produced and further evaluated for their CA-binding activity, using ELISA-modified method and bio-layer interferometry (BLI). Results: Tyrosine at position 56 (Y56) in Ank GAG 1D4 was experimentally identified as the most critical residue for CA binding. Rational substitutions of this residue diminished the binding affinity. However, vdW calculation preconized to substitute serine for tyrosine at position 45. Remarkably, the affinity for the viral CA was significantly enhanced in Ank GAG 1D4-S45Y mutant, with no alteration of the target specificity. Conclusions: The S-to-Y mutation at position 45, based on the prediction of interacting amino acids and on vdW binding energy calculation, resulted in a significant enhancement of the affinity of Ank GAG 1D4 ankyrin for its CA target. Ank GAG 1D4-S45Y mutant represented the starting point for further construction of variants with even higher affinity towards the viral CA, and higher therapeutic potential in the future. |
| first_indexed | 2024-03-06T05:52:14Z |
| format | Article |
| id | um.eprints-20771 |
| institution | Universiti Malaya |
| last_indexed | 2024-03-06T05:52:14Z |
| publishDate | 2017 |
| publisher | Allergy and Immunology Society of Thailand |
| record_format | dspace |
| spelling | um.eprints-207712019-03-20T04:12:44Z http://eprints.um.edu.my/20771/ Deciphering critical amino acid residues to modify and enhance the binding affinity of ankyrin scaffold specific to capsid protein of human immunodeficiency virus type 1 Saoin, Somphot Wisitponchai, Tanchanok Intachai, Kannaporn Chupradit, Koollawat Moonmuang, Sutpirat Nangola, Sawitree Kitidee, Kuntida Fanhchaksai, Kanda Lee, Vannajan Sanghiran Hong, Saw See Boulanger, Pierre Chuankhayan, Phimonphan Chen, Chun Jung Tayapiwatana, Chatchai Q Science (General) QC Physics QD Chemistry R Medicine Background: Ank GAG 1D4 is an artificial ankyrin repeat protein which recognizes the capsid protein (CA) of the human immunodeficiency virus type 1 (HIV-1) and exhibits the intracellular antiviral activity on the viral assembly process. Improving the binding affinity of Ank GAG 1D4 would potentially enhance the Ank GAG 1D4-mediated antiviral activity. Objective: To augment the affinity of Ank GAG 1D4 scaffold towards its CA target, through computational predictions and experimental designs. Method: Three dimensional structure of the binary complex formed by Ank GAG 1D4 docked to the CA was used as a model for van der Waals (vdW) binding energy calculation. The results generated a simple guideline to select the amino acids for modifications. Following the predictions, modified Ank GAG 1D4 proteins were produced and further evaluated for their CA-binding activity, using ELISA-modified method and bio-layer interferometry (BLI). Results: Tyrosine at position 56 (Y56) in Ank GAG 1D4 was experimentally identified as the most critical residue for CA binding. Rational substitutions of this residue diminished the binding affinity. However, vdW calculation preconized to substitute serine for tyrosine at position 45. Remarkably, the affinity for the viral CA was significantly enhanced in Ank GAG 1D4-S45Y mutant, with no alteration of the target specificity. Conclusions: The S-to-Y mutation at position 45, based on the prediction of interacting amino acids and on vdW binding energy calculation, resulted in a significant enhancement of the affinity of Ank GAG 1D4 ankyrin for its CA target. Ank GAG 1D4-S45Y mutant represented the starting point for further construction of variants with even higher affinity towards the viral CA, and higher therapeutic potential in the future. Allergy and Immunology Society of Thailand 2017 Article PeerReviewed Saoin, Somphot and Wisitponchai, Tanchanok and Intachai, Kannaporn and Chupradit, Koollawat and Moonmuang, Sutpirat and Nangola, Sawitree and Kitidee, Kuntida and Fanhchaksai, Kanda and Lee, Vannajan Sanghiran and Hong, Saw See and Boulanger, Pierre and Chuankhayan, Phimonphan and Chen, Chun Jung and Tayapiwatana, Chatchai (2017) Deciphering critical amino acid residues to modify and enhance the binding affinity of ankyrin scaffold specific to capsid protein of human immunodeficiency virus type 1. Asian Pacific Journal of Allergy and Immunology, 36 (2). pp. 126-135. ISSN 0125-877X, DOI https://doi.org/10.12932/AP-280217-0037 <https://doi.org/10.12932/AP-280217-0037>. https://doi.org/10.12932/AP-280217-0037 doi:10.12932/AP-280217-0037 |
| spellingShingle | Q Science (General) QC Physics QD Chemistry R Medicine Saoin, Somphot Wisitponchai, Tanchanok Intachai, Kannaporn Chupradit, Koollawat Moonmuang, Sutpirat Nangola, Sawitree Kitidee, Kuntida Fanhchaksai, Kanda Lee, Vannajan Sanghiran Hong, Saw See Boulanger, Pierre Chuankhayan, Phimonphan Chen, Chun Jung Tayapiwatana, Chatchai Deciphering critical amino acid residues to modify and enhance the binding affinity of ankyrin scaffold specific to capsid protein of human immunodeficiency virus type 1 |
| title | Deciphering critical amino acid residues to modify and enhance the binding affinity of ankyrin scaffold specific to capsid protein of human immunodeficiency virus type 1 |
| title_full | Deciphering critical amino acid residues to modify and enhance the binding affinity of ankyrin scaffold specific to capsid protein of human immunodeficiency virus type 1 |
| title_fullStr | Deciphering critical amino acid residues to modify and enhance the binding affinity of ankyrin scaffold specific to capsid protein of human immunodeficiency virus type 1 |
| title_full_unstemmed | Deciphering critical amino acid residues to modify and enhance the binding affinity of ankyrin scaffold specific to capsid protein of human immunodeficiency virus type 1 |
| title_short | Deciphering critical amino acid residues to modify and enhance the binding affinity of ankyrin scaffold specific to capsid protein of human immunodeficiency virus type 1 |
| title_sort | deciphering critical amino acid residues to modify and enhance the binding affinity of ankyrin scaffold specific to capsid protein of human immunodeficiency virus type 1 |
| topic | Q Science (General) QC Physics QD Chemistry R Medicine |
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