Figure 1
Diagram of the architecture of ExpressInHost.
Figure 2
Graphical user interface of ExpressInHost.
Figure 3
Expandable Instructions window of ExpressInHost.
Figure 4
Example of Clustal alignment.
Table 1
Codons 112 to 121 of the protein Rad51-RecA-RadA from Homo sapiens in its native, fully optimised, and tuned by mode 2 versions. The host organism used is Escherichia coli. Codons tagged in the mode 2 are highlighted by an asterisk and their rank index is indicated.
| POSITION | INPUT: HOMO SAPIENS | OUTPUT: ESCHERICHIA COLI | ||
|---|---|---|---|---|
| NATIVE/RANK INDEX | FULL OPTIMISATION | OPTIMISATION AND CONSERVATION I/RANK INDEX | ||
| 112 | *CUU/1 | CUG | *CUG/1 | |
| 113 | CAA | CAA or CAG | CAA or CAG | |
| 114 | *GGU/0.46 | GGC | *GGU/0.53 | |
| 115 | *GGA/0.44 | GGC | *GGU/0.53 | |
| 116 | AUU | AUC | AUC | |
| 117 | GAG | GAA | GAA | |
| 118 | ACU | ACC or ACG | ACC or ACG | |
| 119 | GGA | GGC | GGC | |
| 120 | UCU | UCC | UCC | |
| 121 | AUC | AUC | AUC | |
Figure 5
Effects of the number of proteins and phylogenetic diversity in the input set of orthologous genes, shown for mode 2. The name of the native organism whose protein is removed from the set of orthologous sequences is shown on the abscissa, while the amino acid conservation is measured on the ordinate. The less proteins considered and the closer they are related, the more amino acids are conserved.