COVID-19 AlphaFold2 Models: Difference between revisions

<StructureSection load='' size='350' side='right' scene='84/842060/Sars-cov-2_protein_n/1' caption='SARS-CoV-2 Protein N'>

To the right is an '''[[AlphaFold]]2''' 3D model of the SARS CoV-2 Protein N (UniProt ID: QHD43423) color coded by the pLDDT scores. It corresponds to the highest ranked model in terms of the pLDDT confidence scores, ''i.e.'', model 5<ref name="MIT_ColabFold"> MIT ColabFold https://colab.research.google.com/github/sokrypton/ColabFold/blob/main/beta/AlphaFold2_advanced.ipynb </ref>.

At present a number of proteins structures have not yet been determined experimentally for the SARS-CoV-19 Virus. [[AlphaFold]]2 was used to predict 3D models for these proteins using the MIT ColabFold server<ref name="MIT_ColabFold"> MIT ColabFold https://colab.research.google.com/github/sokrypton/ColabFold/blob/main/beta/AlphaFold2_advanced.ipynb </ref>. For each prediction, five 3D models were predicted, ranked 1 to 5 (with 1 being the best). These are:

[[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>[https://zhanglab.ccmb.med.umich.edu/COVID-19/ Modeling of the SARS-COV-2 Genome]</ref><ref>pmid 32200634</ref>]

[[SARS-CoV-2 protein N]] - The primary function of the Nucleocapsid protein (N-protein) is to package the viral genome into a helical ribonucleoprotein (RNP) complex.

[[SARS-CoV-2 protein ORF10]] - It is currently unclear whether this region translates into a functional protein.<ref>[https://zhanglab.ccmb.med.umich.edu/COVID-19/ Modeling of the SARS-COV-2 Genome]</ref><ref>pmid 32200634</ref>]