Table 4 Functional enrichment summary of protein-protein interaction network of proteins evolved with accelerated RSA change rate in Rodentia clade (based on STRING [54] data)
Function | Heterotachy model | Heterotachy and Site partitioning models intersection, all data | ||||
|---|---|---|---|---|---|---|
All data | Protein structure-aware data | |||||
FDR | Colora | FDR | Colora | FDR | Colora | |
mitochondrial ATP synthesis coupled electron transport | 0.00036 | red | – | – | 0.00053 | green |
mitochondrial electron transport, NADH to ubiquinone | 0.00147 | yellow | – | – | 0.00053 | blue |
oxidative phosphorylation | 0.00331 | – | – | – | 0.00053 | red |
ATP metabolism | 0.00399 | – | – | – | 0.00053 | violet |
cellular respiration | 0.00478 | – | – | – | 0.00053 | yellow |
oxidation-reduction | 0.00615 | – | – | – | 0.0389 | – |
small molecule metabolism | 0.00147 | violet | – | – | 0.0493 | – |
catalytic activity | – | – | 5E-06 | red | – | – |
mitochondrion organization | 0.00078 | blue | – | – | – | – |
purine ribonucleoside triphosphate metabolism | 0.00119 | green | – | – | – | – |
single-organism metabolism | 0.00147 | – | – | – | – | – |
protein targeting to mitochondrion | 0.00258 | – | – | – | – | – |
mitochondrial transport | 0.00328 | – | – | – | – | – |
ketone body catabolism | 0.00692 | – | – | – | – | – |
nucleotide binding | – | – | 0.0167 | blue | – | – |
ribonucleotide binding | – | – | 0.0167 | green | – | – |
purine ribonucleoside binding | – | – | 0.033 | yellow | – | – |
purine ribonucleotide binding | – | – | 0.033 | violet | – | – |