Table 2.
Frequent amino acid substitutions in the orthologous proteins of T. kodakaraensis and Pyrococcus spp.
|
|
|
|
|
Forward |
Reverse |
Biased |
Frequent nucleotide changes |
|---|---|---|---|---|---|---|---|
| T. kodakaraensis | → | Pyrococcus spp. | Total | 65,053 | 5664 | ||
| (Average) | (Average) | ||||||
| Val | lle | 3745 | 2174 | 1571 | GT(TC)→AT(AT) | ||
| Arg | Lys | 3233 | 2149 | 1084 | AG(AG)→AA(AG) | ||
| Leu | lle | 2358 | 1399 | 959 | CT(TGC)→AT(AT) | ||
| Asp | Glu | 1554 | 1382 | 172 | GAC→GA(AG) | ||
| Glu | Lys | 1494 | 1002 | 492 | GAG→AA(AG) | ||
| Ala | XXX | 5220 | 3164 | 2056 | GC(GC)→XXX | ||
| P. furiosus | → | P. abyssi | Total | 45,077 | 4401 | ||
| Lys | Arg | 2726 | 1989 | 737 | AA(AG)→AG(AG) | ||
| lle | Val | 2704 | 2283 | 421 | AT(AT)→GT(ATG) | ||
| lle | Leu | 1435 | 1366 | 69 | AT(AT)→CT(ACT) | ||
| Glu | Asp | 1397 | 1090 | 307 | GA(AG)→GAT | ||
| Lys | Glu | 984 | 902 | 82 | AA(AG)→GAG | ||
| Ala | XXX | 2476 | 2472 | 4 | GC(ATC)→XXX | ||
| P. abyssi | → | P. horikoshii | Total | 33,739 | 3013 | ||
| Arg | Lys | 2489 | 2040 | 449 | AG(AG)→AA(AG) | ||
| Val | lle | 2482 | 1972 | 510 | GT(AT)→AT(ATC) | ||
| Asp | Glu | 1045 | 1028 | 17 | GAT→GA(AG) | ||
| Leu | lle | 1031 | 963 | 68 | (TC)TX→AT(AT) | ||
| Glu | Lys | 829 | 617 | 212 | GAG→AA(AG) | ||
| Ala | XXX | 1950 | 1569 | 381 | GC(ATC)→XXX | ||
| P. horikoshii | → | P. furiosus | Total | 44,411 | 3117 | ||
| lle | Val | 2669 | 2551 | 118 | AT(ATC)→GT(AT) | ||
| Arg | Lys | 2592 | 2290 | 302 | AG(AG)→AA(AG) | ||
| lle | Leu | 1336 | 1325 | 11 | AT(AT)→(TC)T(AT) | ||
| Asp | Glu | 1297 | 1059 | 238 | GAT→GA(AG) | ||
| Lys | Glu | 989 | 851 | 138 | AA(AG)→GAA | ||
| Ala
|
|
XXX
|
|
2225
|
2610
|
−385
|
GC(ATC)→XXX
|
-
A sequence set of orthologous proteins highly conserved in all Thermococcales strains (identity ≥60% and overlap ≥80%, total 917 sets) were aligned by CLUSTALW, and amino acid substitutions in each alignment were extracted.
