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TM-Score Analysis
TM-Score Analysis
TM-score is a method of measuring the similarity between the structures of 2 proteins. It is intended to provide a more accurate analysis for a full-length protein than RMSD measure. A higher TM-score, approximate to 1, indicates high percentage of similarity between two target proteins and often calculating for shared amino acid residues.
Control Analysis
Control Analysis
TRIM7-H24Q is a naturally occurring polymorphism of TRIM7. Since 3Cpro is known to cleave TRIM7, and is known to not cleave TRIM7-H24Q, we can use TRIM7 and TRIM7-H24Q as positive and negative controls, respectively.Â
Figure 1: Cleavage Analysis for Positive Controls. The proteins TRIM7, MAVS, TRIF, and OAS3 are all known to be cleavage targets for 3Cpro, according to previous literature. Each entry represents the TM-score between the two proteins. If our methods are reasonable, we expect the ratios between the TM-scores to be less than 1.
Figure 2: Cleavage Analysis for Negative Controls. The proteins IRF3-WT, NUP98, and TRIM7-H24Q are all known to be cleavage non-targets for 3Cpro, according to previous literature. Each entry represents the TM-score between the two proteins. If our methods are reasonable, we expect the ratios between the TM-scores to be greater than 1.
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