Homework 11: Fill in the blank – 2 points each entry – capitalization does not matter. Students can take this assignment an unlimited number of times with the best score kept.
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1. Question
Acquire the following amino acid sequences from NCBI Protein: ANP1 in Saccharomyces cerevisiae (NCBI identifier: AAB28440.1), beta-lactamase in Klebsiella pneumoniae (NCBI identifier: AHM79651.1), and prolyl-tRNA synthetase family protein in Cryptosporidium muris (NCBI identifier: XP_002142641). Analyze each sequence using STITCH and STRING. For the beta-lactamase protein, select Klebsiella pneumoniae subsp. pneumoniae MGH 78578 in STITCH and STRING. From these results, answer the following questions:
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For AAB28440.1 analyzed by STITCH, how many predicted functional partners with the highest confidence (<0.900) were identified?
For AAB28440.1 analyzed by STRING, how many predicted functional partners with the highest confidence were identified?
For AAB28440.1 analyzed by STRING, how many partners identified had a gene symbol starting with MNN?
For AAB28440.1, what are the gene symbols for the 3 predicted functional partners that were found by STRING but NOT STITCH? List the symbols in alphabetical order.For AHM79651.1 analyzed by STITCH, most predicted functional partners identified are what type of molecule (HINT: Penicillin G is part of this molecule type)?
For AHM79651.1 analyzed by STITCH, what is the top scoring predicted functional partner?
For AHM79651.1 analyzed by STRING, how many predicted functional partners with the highest confidence were identified?
For AHM79651.1 analyzed by STRING, what is the gene symbol for the top scoring predicted functional partner?For XP_002142641 analyzed by STITCH, how many predicted functional partners with the highest confidence were identified?
For XP_002142641 analyzed by STITCH, name the two molecules identified in alphabetical order. HINT: Look for molecular weights to identify molecule from proteins.
For XP_002142641 analyzed by STRING, how many predicted functional partners with the highest confidence were identified?
For XP_002142641 analyzed by STRING, how many predicted functional partners are from the tRNA synthetase family of proteins?
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