Table 3. Average game centrality (GC) values for E. coli methionyl-tRNA synthetase amino acids.
Average Game Centrality (GC) of substrate-free proteina | Average Game Centrality (GC) of substrate-bound protein | Game Centrality (GC) decrease | |
Catalytic domainb | 0.69 | 0.60 | 0.09 |
• Rossmann-fold-1(active centre) | 0.73 | 0.56 | 0.17 |
• Rossmann-fold-2 | 0.68 | 0.62 | 0.06 |
• Stem contact fold (KSMKS) | 0.65 | 0.61 | 0.04 |
Connecting peptide (CP) domain | 0.50 | 0.36 | 0.14 |
tRNA anticodon-binding domain | 0.63 | 0.41 | 0.22 |
Signaling amino acids [39] | 0.79 | 0.73 | 0.06 |
Complete Met-tRNA-synthetase | 0.62 | 0.47 | 0.15 |
Protein structure network of E coli methionyl-tRNA-synthetase was constructed, Prisoner’s dilemma game was simulated, and game centrality measures were calculated as described in Methods.
Domains from top to bottom: the catalytic domain including the Rossmann-fold-1 (catalytic function), Rossmann-fold-2 and stem contact fold (KMSKS) sub-domains; the connecting peptide (CP) domain; the anticodon binding, carboxy-terminal domain, 43 signaling amino acids involved in the transmission of conformational change as shown by Ghosh and Vishveshwara [46], whole methionyl-tRNA synthetase.