Table 11.
COGs used for the comparative analysis of Maximum Likelihood trees for individual protein families
| COG | speca | protb | Name |
| COG0012 | 40 | 41 | Predicted GTPase |
| COG0013 | 40 | 40 | Alanyl-tRNA synthetase |
| COG0016 | 40 | 40 | Phenylalanyl-tRNA synthetase alpha submit |
| COG0018 | 40 | 41 | Arginyl-tRNA synthetase |
| COG0020 | 37 | 40 | Undecaprenyl pyrophosphate synthase |
| COG0048 | 39 | 39 | Ribosomal protein S12 |
| COG0049 | 40 | 41 | Ribosomal protein S7 |
| COG0051 | 40 | 40 | Ribosomal protein S10 |
| COG0052 | 40 | 40 | Ribosomal protein S2 |
| COG0060 | 40 | 40 | Isoleucyl-tRNA synthetase |
| COG0061 | 37 | 40 | Predicted kinase |
| COG0064 | 30 | 30 | Asp-tRNAAsn/Glu-tRNAGIn amidotransferase B subunit (PET 112 homolog) |
| COG0072 | 40 | 40 | Phenylalanyl-tRNA synthetase beta subunit |
| COG0080 | 40 | 41 | Ribosomal protein LI 1 |
| COG0081 | 40 | 40 | Ribosomal protein LI |
| COG0082 | 33 | 33 | Chorismate synthase |
| COG0085 | 40 | 40 | DNA-directed RNA polymerase beta subunit/140 kD subunit (split gene in |
| Mjan, Mthe, Aful) | |||
| COG0087 | 40 | 40 | Ribosomal protein L3 |
| COG0088 | 40 | 40 | Ribosomal protein L4 |
| COG0090 | 40 | 40 | Ribosomal protein L2 |
| COG0091 | 40 | 40 | Ribosomal protein L22 |
| COG0092 | 40 | 40 | Ribosomal protein S3 |
| COG0093 | 39 | 39 | Ribosomal protein LI 4 |
| COG0094 | 40 | 40 | Ribosomal protein L5 |
| COG0096 | 40 | 40 | Ribosomal protein S8 |
| COG0097 | 40 | 40 | Ribosomal protein L6 |
| COG0098 | 40 | 40 | Ribosomal protein S5 |
| COG0099 | 40 | 40 | Ribosomal protein S13 |
| COG0100 | 39 | 39 | Ribosomal protein S11 |
| COG0101 | 38 | 38 | Pseudouridylate synthase (tRNA psi55) |
| COG0102 | 40 | 40 | Ribosomal protein LI 3 |
| COG0103 | 40 | 40 | Ribosomal protein S9 |
| COG0104 | 31 | 31 | Adenylosuccinate synthase |
| COG0105 | 33 | 33 | Nucleoside diphosphate kinase |
| COG0126 | 39 | 39 | 3-phosphoglycerate kinase |
| COG0127 | 34 | 35 | Xanthosine triphosphate pyrophosphatase |
| COG0128 | 33 | 35 | 5-enolpyruvylshikimate-3-phosphate synthase |
| COG0130 | 37 | 37 | Pseudouridine synthase |
| COG0134 | 30 | 30 | Indole-3-glycerol phosphate synthase |
| COG0135 | 30 | 30 | Phosphoribosylanthranilate isomerase |
| COG0143 | 40 | 41 | Methionyl-tRNA synthetase |
| COG0148 | 39 | 43 | Enolase |
| COG0149 | 39 | 41 | Triosephosphate isomerase |
| COG0151 | 30 | 30 | Phosphoribosylamine-glycine ligase |
| COG0152 | 30 | 32 | Phosphoribosylaminoimidazolesuccinocarboxamide (SAICAR) synthase |
| COG0159 | 31 | 31 | Tryptophan synthase alpha chain |
| COG0162 | 40 | 43 | Tyrosyl-tRNA synthetase |
| COG0164 | 35 | 35 | Ribonuclease HII |
| COG0166 | 35 | 35 | Glucose-6-phosphate isomerase |
| COG0167 | 32 | 37 | Dihydroorotate dehydrogenase |
| COG0169 | 33 | 39 | Shikimate 5-dehydrogenase |
| COG0171 | 35 | 37 | NAD synthase |
| COG0172 | 40 | 40 | Seryl-tRNA synthetase |
| COG0173 | 30 | 30 | Aspartyl-tRNA synthetase |
| COG0178 | 31 | 33 | Excinuclease ATPase submit |
| COG0180 | 40 | 43 | Tryptophanyl-tRNA synthetase |
| COG0190 | 33 | 33 | 5,10-methylene-tetrahydrofolate dehydrogenase |
| COG0193 | 30 | 30 | Peptidyl-tRNA hydrolase |
| COG0197 | 40 | 40 | Ribosomal protein L16/L10E |
| COG0198 | 40 | 40 | Ribosomal protein L24 |
| COG0200 | 40 | 40 | Ribosomal protein LI 5 |
| COG0201 | 40 | 41 | Preprotein translocase subunit SecY |
| COG0202 | 40 | 40 | DNA-directed RNA polymerase alpha subunit/40 kD subunit |
| COG0203 | 30 | 30 | Ribosomal protein LI 7 |
| COG0215 | 38 | 39 | Cysteinyl-tRNA synthetase |
| COG0216 | 30 | 30 | Protein chain release factor A |
| COG0221 | 31 | 31 | Inorganic pyrophosphatase |
| COG0222 | 30 | 30 | Ribosomal protein L7/L12 |
| COG0223 | 30 | 34 | Methionyl-tRNA formyltransferase |
| COG0231 | 40 | 46 | Translation elongation factor P/translation initiation factor eIF-5A |
| COG0233 | 30 | 30 | Ribosome recycling factor |
| COG0237 | 39 | 41 | Dephospho-CoA kinase |
| COG0242 | 30 | 35 | N-formylmethionyl-tRNA deformylase |
| COG0244 | 40 | 40 | Ribosomal protein L10 |
| COG0250 | 40 | 43 | Transcription antiterminator |
| COG0256 | 40 | 40 | Ribosomal protein LI 8 |
| COG0258 | 40 | 47 | 5'-3' exonuclease (including N-terminal domain of Poll) |
| COG0261 | 30 | 30 | Ribosomal protein L21 |
| COG0264 | 30 | 30 | Translation elongation factor Ts |
| COG0272 | 30 | 31 | NAD-dependent DNA ligase (contains BRCT domain type II) |
| COG0275 | 30 | 30 | Predicted S-adenosylmethionine-dependent methyltransferase involved in cell |
| envelope biogenesis | |||
| COG0284 | 32 | 32 | Orotidine-5'-phosphate decarboxylase |
| COG0290 | 30 | 30 | Translation initiation factor IF3 |
| COG0292 | 30 | 30 | Ribosomal protein L20 |
| COG0294 | 33 | 36 | Dihydropteroate synthase |
| COG0305 | 30 | 31 | Replicative DNA helicase |
| COG0313 | 30 | 31 | Predicted methyltransferases |
| COG0319 | 30 | 30 | Predicted metal-dependent hydrolase |
| COG0335 | 30 | 30 | Ribosomal protein LI 9 |
| COG0336 | 30 | 30 | tRNA-(guanine-N1)-methyltransferase |
| COG0340 | 32 | 34 | Biotin-(acetyl-CoA carboxylase) ligase |
| COG0343 | 35 | 36 | Queuine/archaeosine tRNA-ribosyltransferase |
| COG0351 | 31 | 34 | Hydroxymethylpyrimidine/phosphomethylpyrimidine kinase |
| COG0359 | 30 | 30 | Ribosomal protein L9 |
| COG0441 | 40 | 43 | Threonyl-tRNA synthetase |
| COG0442 | 40 | 40 | Prolyl-tRNA synthetase |
| COG0452 | 32 | 32 | Phosphopantothenoylcysteine synthetase/decarboxylase |
| COG0461 | 33 | 34 | Orotate phosphoribosyltransferase |
| COG0462 | 37 | 40 | Phosphoribosylpyrophosphate synthetase |
| COG0481 | 30 | 30 | Membrane GTPase LepA |
| COG0495 | 40 | 41 | Leucyl-tRNA synthetase |
| COG0504 | 38 | 38 | CTP synthase (UTPammonia lyase) |
| COG0519 | 33 | 33 | GMP synthase – PP-ATPase domain |
| COG0522 | 40 | 40 | Ribosomal protein S4 and related proteins |
| COG0525 | 40 | 40 | Valyl-tRNA synthetase |
| COG0528 | 40 | 40 | Uridylate kinase |
| COG0532 | 40 | 40 | Translation initiation factor 2 (GTPase) |
| COG0533 | 40 | 40 | Metal-dependent proteases with possible chaperone activity |
| COG0536 | 30 | 30 | Predicted GTPase |
| COG0540 | 30 | 30 | Aspartate carbamoyltransferase, catalytic chain |
| COG0541 | 40 | 40 | Signal recognition particle GTPase |
| COG0544 | 30 | 30 | FKBP-type peptidyl-prolyl cis-trans isomerase (trigger factor) |
| COG0547 | 30 | 35 | Anthranilate phosphoribosyltransferase |
| COG0552 | 40 | 40 | Signal recognition particle GTPase |
| COG0556 | 31 | 31 | Helicase subunit of the DNA excision repair complex |
| COG0571 | 30 | 30 | dsRNA-specific ribonuclease |
| COG0573 | 30 | 34 | ABC-type phosphate transport system, permease component |
| COG0576 | 34 | 35 | Molecular chaperone GrpE (heat shock protein) |
| COG0581 | 30 | 34 | ABC-type phosphate transport system, permease component |
| COG0587 | 30 | 35 | DNA polymerase III alpha subunit |
| COG0597 | 30 | 30 | Lipoprotein signal peptidase |
| COG0653 | 30 | 32 | Preprotein translocase subunit SecA (ATPase, RNA helicase) |
| COG0682 | 30 | 30 | Prolipoprotein diacylglyceryltransferase |
| COG0691 | 30 | 30 | tmRNA-binding protein |
| COG0706 | 30 | 34 | Preprotein translocase subunit YidC |
| COG0781 | 30 | 30 | Transcription termination factor |
| COG0858 | 30 | 30 | Ribosome-binding factor A |
| COG1160 | 30 | 30 | Predicted GTPases |
| COG1214 | 30 | 30 | Inactive homologs of metal-dependent proteases, putative molecular chaperones |
| COG1466 | 30 | 30 | DNA polymerase III delta subunit |
| COG1488 | 32 | 35 | Nicotinic acid phosphoribosyltransferase |
| COG2812 | 30 | 30 | DNA polymerase III, gamma/tau subunits |
aNumber of represented species. bNumber of proteins.