Structural assembly of the bacterial essential interactome
The study of protein interactions in living organisms is fundamental for understanding biological processes and central metabolic pathways. Yet, our knowledge of the bacterial interactome remains limited. Here, we combined gene deletion mutant analysis with deep-learning protein folding using AlphaF...
| Main Authors: | , |
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| Format: | Article |
| Language: | English |
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eLife Sciences Publications Ltd
2024-01-01
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| Series: | eLife |
| Subjects: | |
| Online Access: | https://elifesciences.org/articles/94919 |
| _version_ | 1827351555662151680 |
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| author | Jordi Gómez Borrego Marc Torrent Burgas |
| author_facet | Jordi Gómez Borrego Marc Torrent Burgas |
| author_sort | Jordi Gómez Borrego |
| collection | DOAJ |
| description | The study of protein interactions in living organisms is fundamental for understanding biological processes and central metabolic pathways. Yet, our knowledge of the bacterial interactome remains limited. Here, we combined gene deletion mutant analysis with deep-learning protein folding using AlphaFold2 to predict the core bacterial essential interactome. We predicted and modeled 1402 interactions between essential proteins in bacteria and generated 146 high-accuracy models. Our analysis reveals previously unknown details about the assembly mechanisms of these complexes, highlighting the importance of specific structural features in their stability and function. Our work provides a framework for predicting the essential interactomes of bacteria and highlight the potential of deep-learning algorithms in advancing our understanding of the complex biology of living organisms. Also, the results presented here offer a promising approach to identify novel antibiotic targets. |
| first_indexed | 2024-03-08T02:05:12Z |
| format | Article |
| id | doaj.art-cad1525341044aefb59b7c5bb8eebb5a |
| institution | Directory Open Access Journal |
| issn | 2050-084X |
| language | English |
| last_indexed | 2024-03-08T02:05:12Z |
| publishDate | 2024-01-01 |
| publisher | eLife Sciences Publications Ltd |
| record_format | Article |
| series | eLife |
| spelling | doaj.art-cad1525341044aefb59b7c5bb8eebb5a2024-02-13T17:49:03ZengeLife Sciences Publications LtdeLife2050-084X2024-01-011310.7554/eLife.94919Structural assembly of the bacterial essential interactomeJordi Gómez Borrego0https://orcid.org/0000-0003-1963-5455Marc Torrent Burgas1https://orcid.org/0000-0001-6567-3474Systems Biology of Infection Lab, Department of Biochemistry and Molecular Biology, Biosciences Faculty, Universitat Autònoma de Barcelona, Cerdanyola del Vallès, SpainSystems Biology of Infection Lab, Department of Biochemistry and Molecular Biology, Biosciences Faculty, Universitat Autònoma de Barcelona, Cerdanyola del Vallès, SpainThe study of protein interactions in living organisms is fundamental for understanding biological processes and central metabolic pathways. Yet, our knowledge of the bacterial interactome remains limited. Here, we combined gene deletion mutant analysis with deep-learning protein folding using AlphaFold2 to predict the core bacterial essential interactome. We predicted and modeled 1402 interactions between essential proteins in bacteria and generated 146 high-accuracy models. Our analysis reveals previously unknown details about the assembly mechanisms of these complexes, highlighting the importance of specific structural features in their stability and function. Our work provides a framework for predicting the essential interactomes of bacteria and highlight the potential of deep-learning algorithms in advancing our understanding of the complex biology of living organisms. Also, the results presented here offer a promising approach to identify novel antibiotic targets.https://elifesciences.org/articles/94919interactomebacteriaAlphaFold |
| spellingShingle | Jordi Gómez Borrego Marc Torrent Burgas Structural assembly of the bacterial essential interactome eLife interactome bacteria AlphaFold |
| title | Structural assembly of the bacterial essential interactome |
| title_full | Structural assembly of the bacterial essential interactome |
| title_fullStr | Structural assembly of the bacterial essential interactome |
| title_full_unstemmed | Structural assembly of the bacterial essential interactome |
| title_short | Structural assembly of the bacterial essential interactome |
| title_sort | structural assembly of the bacterial essential interactome |
| topic | interactome bacteria AlphaFold |
| url | https://elifesciences.org/articles/94919 |
| work_keys_str_mv | AT jordigomezborrego structuralassemblyofthebacterialessentialinteractome AT marctorrentburgas structuralassemblyofthebacterialessentialinteractome |