Homework 10: Fill in the blank – 2 points each – capitalization does not matter. Students can take this assignment an unlimited number of times with the best score kept.
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Find the unbound AlleyCat10 protein from Homo sapiens in the PDB and answer these questions about its structure.
What experimental method was used to determine this structure?
What is the resolution of this structure in Angstroms?
What is the R-Value Free value:Find the unbound polyethylene terephthalate degrading hydrolase from Ideonella sakaiensis in the PDB and answer these questions about its structure.
What is the PDB structure identifier?
What is the total weight of the protein in kDa?
Search PDB for both MJ0277 and MJ0279. Which protein does NOT have a structure in PDB?From NCBI, find the amino acid sequence for the protein that does NOT have a structure in PDB and use Phyre2 to generate a structure for this protein. From this structure, answer the following questions.
What percentage of your sequence was modelled?
What was the confidence of the model prediction as a percentage?
What is the PDB identifier for the top template used to develop this model prediction?
What is the PDB title for the top template used to develop this model prediction?
What percent identity did the top template have for the model prediction?Find the amino acid sequence for WP_135122245_1 from NCBI and use Phyre2 to generate a structure for this protein. From this structure, answer the following questions.
What percentage of your sequence was modelled?
What was the confidence of the model prediction as a percentage?
What was the confidence for the top template used for the model prediction?
What percent identity did the top template have for the model prediction?
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