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Some of the most prominent examples for protein speciation are the histones.
Examples for protein engineering of aldolases and transaldolases are given in the second part of the mini-review.
The table shows the changes in given performance parameters for a particular ML method obtained between experiments with the lowest and the highest number of negative training examples for protein targets selected for confirmatory tests.
Vaccines, interferons and hormones like insulin, human growth hormone (hGH) and erythropoietin (EPO) are examples for protein biopharmaceuticals.
Some prominent examples for protein classification are SYSTERS (Liu and Rost, 2003), CluSTr (Petryszak et al., 2005) and ProtoNet (Rappoport et al., 2013).
Examples for protein design are the insertion of positively charged residues into hydrophobic patches on the surface [ 10], exchange of phenylalanines by serines [ 11] or asparagine residues by aspartic acids [ 12].
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Some useful examples for proteins from 5,000 to 500,000 Da are given in Table 1.
The effectiveness of the method is illustrated by taking an example for protein folding.
In a recent work [1], we used extensive atomistic molecular dynamics simulations with explicit solvent to study the binding of an SH3 domain with its binding partner as a general example for protein binding mediated by modular protein domains.
But an absolute comparison of codon usage frequency can not take into account the evolutionary pressure to maintain a given amino acid residue at a particular position, for example for protein folding, stability, and/or function.
For example, for protein yield, bulls with an MGBV of 1.8 σa showed a maximum difference in SDGBV of 0.22 σa.
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