COVID-19 AlphaFold2 Models: Difference between revisions

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Joel L. Sussman (talk | contribs)
ConfirmAccount, Editor, Mutation, Print3D, Tester, Bureaucrats, journal, tester
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Joel L. Sussman (talk | contribs)
ConfirmAccount, Editor, Mutation, Print3D, Tester, Bureaucrats, journal, tester
11,713 edits
No edit summary
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et al. & Krogan (2020)<ref>PMID: 32353859</ref> )]]
et al. & Krogan (2020)<ref>PMID: 32353859</ref> )]]
[[Image:VirusImage.jpg|right|280px|thumb|Organization of SARS-CoV-2 virus (from Holmes & Enjuanes (2003)<ref>pmid 12775826</ref>)]]
[[Image:VirusImage.jpg|right|280px|thumb|Organization of SARS-CoV-2 virus (from Holmes & Enjuanes (2003)<ref>pmid 12775826</ref>)]]
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At present, there are still a number of proteins from the SARS CoV-2 virus whose 3D structures have not yet been experimentally determined. [[AlphaFold]]2 was used to predict these structures using the MIT ColabFold server<ref name="MIT_ColabFold">[https://colab.research.google.com/github/sokrypton/ColabFold/blob/main/beta/AlphaFold2_advanced.ipynb  MIT ColabFold]</ref>, which was developed by [http://colab.research.google.com/github/sokrypton/ColabFold/blob/main/AlphaFold2.ipynb Sergey Ovchinnikov, Milot Mirdita and Martin Steinegger]. For each prediction, five 3D models were predicted, ranked from 1 to 5 (with 1 being the best). Views of these AlphaFold2 predictions can be seen on the Proteopedia pages:<br>
{{Template:COVID Validation}}
{{Template:COVID Validation}}
At present, there are still a number of proteins from the SARS CoV-2 virus whose 3D structures have not yet been experimentally determined. [[AlphaFold]]2 was used to predict these structures using the MIT ColabFold server<ref name="MIT_ColabFold">[https://colab.research.google.com/github/sokrypton/ColabFold/blob/main/beta/AlphaFold2_advanced.ipynb  MIT ColabFold]</ref>, which was developed by [http://colab.research.google.com/github/sokrypton/ColabFold/blob/main/AlphaFold2.ipynb Sergey Ovchinnikov, Milot Mirdita and Martin Steinegger]. For each prediction, five 3D models were predicted, ranked from 1 to 5 (with 1 being the best). Views of these AlphaFold2 predictions can be seen on the Proteopedia pages:<br>
'''[[SARS-CoV-2 protein M]]''' - Component of the viral envelope that plays a central role in virus morphogenesis and assembly via its interactions with other viral proteins<ref name="MIT_ColabFold"/><ref name="Zhang Lab">[https://zhanglab.ccmb.med.umich.edu/COVID-19/ Modeling of the SARS-COV-2 Genome]</ref><ref name="Zhang"> pmid 32200634</ref>.
'''[[SARS-CoV-2 protein M]]''' - Component of the viral envelope that plays a central role in virus morphogenesis and assembly via its interactions with other viral proteins<ref name="MIT_ColabFold"/><ref name="Zhang Lab">[https://zhanglab.ccmb.med.umich.edu/COVID-19/ Modeling of the SARS-COV-2 Genome]</ref><ref name="Zhang"> pmid 32200634</ref>.


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