Outline of an experimental design aimed to detect protein A mirror image in solution
There is abundant theoretical evidence indicating that a mirror image of Protein A may occur during the protein folding process. However, as to whether such mirror image exists in solution is an unsolved issue. Here we provide outline of an experimental design aimed to detect the mirror image of Pro...
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| Format: | Article |
| Language: | English |
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PeerJ Inc.
2019-10-01
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| Series: | PeerJ Physical Chemistry |
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| Online Access: | https://peerj.com/articles/pchem-2.pdf |
| _version_ | 1811222856147664896 |
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| author | Osvaldo A. Martin Yury Vorobjev Harold A. Scheraga Jorge A. Vila |
| author_facet | Osvaldo A. Martin Yury Vorobjev Harold A. Scheraga Jorge A. Vila |
| author_sort | Osvaldo A. Martin |
| collection | DOAJ |
| description | There is abundant theoretical evidence indicating that a mirror image of Protein A may occur during the protein folding process. However, as to whether such mirror image exists in solution is an unsolved issue. Here we provide outline of an experimental design aimed to detect the mirror image of Protein A in solution. The proposal is based on computational simulations indicating that the use of a mutant of protein A, namely Q10H, could be used to detect the mirror image conformation in solution. Our results indicate that the native conformation of the protein A should have a pKa, for the Q10H mutant, at ≈6.2, while the mirror-image conformation should have a pKa close to ≈7.3. Naturally, if all the population is in the native state for the Q10H mutant, the pKa should be ≈6.2, while, if all are in the mirror-image state, it would be ≈7.3, and, if it is a mixture, the pKa should be larger than 6.2, presumably in proportion to the mirror population. In addition, evidence is provided indicating the tautomeric distribution of H10 must also change between the native and mirror conformations. Although this may not be completely relevant for the purpose of determining whether the protein A mirror image exists in solution, it could provide valuable information to validate the pKa findings. We hope this proposal will foster experimental work on this problem either by direct application of our proposed experimental design or serving as inspiration and motivation for other experiments. |
| first_indexed | 2024-04-12T08:21:57Z |
| format | Article |
| id | doaj.art-3eb6ca398f7c4f0583b3474a34352f91 |
| institution | Directory Open Access Journal |
| issn | 2689-7733 |
| language | English |
| last_indexed | 2024-04-12T08:21:57Z |
| publishDate | 2019-10-01 |
| publisher | PeerJ Inc. |
| record_format | Article |
| series | PeerJ Physical Chemistry |
| spelling | doaj.art-3eb6ca398f7c4f0583b3474a34352f912022-12-22T03:40:32ZengPeerJ Inc.PeerJ Physical Chemistry2689-77332019-10-011e210.7717/peerj-pchem.2Outline of an experimental design aimed to detect protein A mirror image in solutionOsvaldo A. Martin0Yury Vorobjev1Harold A. Scheraga2Jorge A. Vila3Instituto de Matemática Aplicada San Luis, UNSL-CONICET, San Luis, ArgentinaInstitute of Chemical Biology and Fundamental Medicine, Siberian Branch of the Russian Academy of Science, Novosibirsk, RussiaBaker Laboratory of Chemistry and Chemical Biology, Cornell University, Ithaca, NY, United States of AmericaInstituto de Matemática Aplicada San Luis, UNSL-CONICET, San Luis, ArgentinaThere is abundant theoretical evidence indicating that a mirror image of Protein A may occur during the protein folding process. However, as to whether such mirror image exists in solution is an unsolved issue. Here we provide outline of an experimental design aimed to detect the mirror image of Protein A in solution. The proposal is based on computational simulations indicating that the use of a mutant of protein A, namely Q10H, could be used to detect the mirror image conformation in solution. Our results indicate that the native conformation of the protein A should have a pKa, for the Q10H mutant, at ≈6.2, while the mirror-image conformation should have a pKa close to ≈7.3. Naturally, if all the population is in the native state for the Q10H mutant, the pKa should be ≈6.2, while, if all are in the mirror-image state, it would be ≈7.3, and, if it is a mixture, the pKa should be larger than 6.2, presumably in proportion to the mirror population. In addition, evidence is provided indicating the tautomeric distribution of H10 must also change between the native and mirror conformations. Although this may not be completely relevant for the purpose of determining whether the protein A mirror image exists in solution, it could provide valuable information to validate the pKa findings. We hope this proposal will foster experimental work on this problem either by direct application of our proposed experimental design or serving as inspiration and motivation for other experiments.https://peerj.com/articles/pchem-2.pdfProteinsMirror imagepKaNMRChemical shifts |
| spellingShingle | Osvaldo A. Martin Yury Vorobjev Harold A. Scheraga Jorge A. Vila Outline of an experimental design aimed to detect protein A mirror image in solution PeerJ Physical Chemistry Proteins Mirror image pKa NMR Chemical shifts |
| title | Outline of an experimental design aimed to detect protein A mirror image in solution |
| title_full | Outline of an experimental design aimed to detect protein A mirror image in solution |
| title_fullStr | Outline of an experimental design aimed to detect protein A mirror image in solution |
| title_full_unstemmed | Outline of an experimental design aimed to detect protein A mirror image in solution |
| title_short | Outline of an experimental design aimed to detect protein A mirror image in solution |
| title_sort | outline of an experimental design aimed to detect protein a mirror image in solution |
| topic | Proteins Mirror image pKa NMR Chemical shifts |
| url | https://peerj.com/articles/pchem-2.pdf |
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