SARS-CoV-2 protein NSP4

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{{Theoretical_model}} {{Template:ModelConfidence}}
{{Theoretical_model}} {{Template:ModelConfidence}}
To the right is an '''[[AlphaFold]]2''' 3D model of SARS CoV-2 Protein NSP4 (length = 500 amino acids, i.e. YP_009725300.1, color coded by the pLDDT scores. It corresponds to the highest ranked model in terms of the pLDDT confidence scores, ''i.e.'', model 1<ref name="MIT_ColabFold">[https://colab.research.google.com/github/sokrypton/ColabFold/blob/main/beta/AlphaFold2_advanced.ipynb MIT ColabFold]</ref>.
To the right is an '''[[AlphaFold]]2''' 3D model of SARS CoV-2 Protein NSP4 (length = 500 amino acids, i.e. YP_009725300.1, color coded by the pLDDT scores. It corresponds to the highest ranked model in terms of the pLDDT confidence scores, ''i.e.'', model 1<ref name="MIT_ColabFold">[https://colab.research.google.com/github/sokrypton/ColabFold/blob/main/beta/AlphaFold2_advanced.ipynb MIT ColabFold]</ref>.
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[[Image:NSP4_AlphaFold2_Movie.gif|250px|left|thumb|'''Morph''' of the top 5 ranked [[AlphaFold]]2 models of '''SARS-CoV-2 Protein NSP4''', ''rainbow'' color coded N-C (blue to red)<ref name="MIT_ColabFold"/>.]]
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[[Image:SARS-CoV-2_NSP4.gif|250px|left|thumb|'''Morph''' of the top 5 ranked [[AlphaFold]]2 models of '''SARS-CoV-2 Protein NSP4''', ''rainbow'' color coded N-C (blue to red)<ref name="MIT_ColabFold"/>.]]

Revision as of 13:34, 14 February 2022

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References

  1. ↑ 1.0 1.1 MIT ColabFold
  2. ↑ Modeling of the SARS-COV-2 Genome
  3. ↑ Zhang C, Zheng W, Huang X, Bell EW, Zhou X, Zhang Y. Protein Structure and Sequence Reanalysis of 2019-nCoV Genome Refutes Snakes as Its Intermediate Host and the Unique Similarity between Its Spike Protein Insertions and HIV-1. J Proteome Res. 2020 Apr 3;19(4):1351-1360. doi: 10.1021/acs.jproteome.0c00129., Epub 2020 Mar 24. PMID:32200634 doi:http://dx.doi.org/10.1021/acs.jproteome.0c00129
  4. ↑ NY Times (3-Apr-2020) Bad News Wrapped in Protein: Inside the Coronavirus Genome
  5. ↑ Gadhave K, Kumar P, Kumar A, Bhardwaj T, Garg N, Giri R. Conformational dynamics of 13 amino acids long NSP11 of SARS-CoV-2 under membrane mimetics and different solvent conditions. Microb Pathog. 2021 Sep;158:105041. doi: 10.1016/j.micpath.2021.105041. Epub 2021, Jun 10. PMID:34119626 doi:http://dx.doi.org/10.1016/j.micpath.2021.105041

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Joel L. Sussman, Jaime Prilusky

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