This document describes the gene set included the current version of UBCG phylogenomics pipeline [Learn more].
| Gene | COG category | COG ID | HMM profile | Function |
|---|---|---|---|---|
| alaS | J | COG0013 | TIGR00344 | Alanine-tRNA ligase |
| argS | J | COG0018 | TIGR00456 | Arginine-tRNA ligase |
| aspS | J | COG0173 | TIGR00459 | Aspartate-tRNA ligase |
| cgtA | DL | COG0536 | TIGR02729/PF01018 | GTPase ObgE/CgtA |
| coaE | H | COG0237 | TIGR00152 | Dephospho-CoA kinase |
| cysS | J | COG0215 | TIGR00435 | Cysteine-tRNA ligase |
| dnaA | L | COG0593 | TIGR00362/PF00308 | Chromosomal replication initiator protein DnaA |
| dnaG | L | COG0358 | TIGR01391 | DNA primase |
| dnaX | L | COG2812 | TIGR02397 | DNA polymerase III subunit gamma |
| engA | R | COG1160 | TIGR03594 | GTPase Der |
| ffh | U | COG0541 | TIGR00959 | Signal recognition particle protein |
| fmt | J | COG0223 | TIGR00460 | Methionyl-tRNA formyltransferase |
| frr | J | COG0233 | TIGR00496 | Ribosome-recycling factor |
| ftsY | U | COG0552 | TIGR00064 | Signal recognition particle receptor FtsY |
| gmk | F | COG0194 | TIGR03263/PF00625 | Guanylate kinase |
| hisS | J | COG0124 | TIGR00442 | Histidine-tRNA ligase |
| ileS | J | COG0060 | TIGR00392 | Isoleucine-tRNA ligase 1 |
| infB | J | COG0532 | TIGR00487 | Translation initiation factor IF-2 |
| infC | J | COG0290 | TIGR00168 | Translation initiation factor IF-3 |
| ksgA | J | COG0030 | TIGR00755 | Ribosomal RNA small subunit methyltransferase A |
| lepA | J | COG0481 | TIGR01393 | Elongation factor 4 |
| leuS | J | COG0495 | TIGR00396 | Leucine-tRNA ligase |
| ligA | L | COG0272 | TIGR00575 | DNA ligase |
| nusA | K | COG0195 | TIGR01953 | Transcription termination/antitermination protein NusA |
| nusG | K | COG0250 | TIGR00922 | Transcription termination/antitermination protein NusG |
| pgk | G | COG0126 | PF00162 | Phosphoglycerate kinase |
| pheS | J | COG0016 | TIGR00468 | Phenylalanine-tRNA ligase alpha subunit |
| pheT | J | COG0073 | TIGR00472 | Phenylalanine-tRNA ligase beta subunit |
| prfA | J | COG0216 | TIGR00019 | Peptide chain release factor 1 |
| pyrG | F | COG0504 | TIGR00337 | CTP synthase |
| recA | L | COG0468 | TIGR02012 | DNA recombination and repair protein |
| rbfA | J | COG0858 | TIGR00082 | 30S ribosome-binding factor |
| rnc | K | COG0571 | TIGR02191 | Ribonuclease 3 |
| rplA | J | COG0081 | TIGR01169 | 50S ribosomal protein L1 |
| rplB | J | COG0090 | TIGR01171 | 50S ribosomal protein L2 |
| rplC | J | COG0087 | TIGR03625/PF00297 | 50S ribosomal protein L3 |
| rplD | J | COG0088 | TIGR03953 | 50S ribosomal protein L4 |
| rplE | J | COG0094 | PF00281 | 50S ribosomal protein L5 |
| rplF | J | COG0097 | TIGR03654/PF00347 | 50S ribosomal protein L6 |
| rplI | J | COG0359 | TIGR00158/PF01281 | 50S ribosomal protein L9 |
| rplJ | J | COG0244 | PF00466 | 50S ribosomal protein L10 |
| rplK | J | COG0080 | TIGR01632 | 50S ribosomal protein L11 |
| rplL | J | COG0222 | TIGR00855 | 50S ribosomal protein L7/L12 |
| rplM | J | COG0102 | TIGR01066 | 50S ribosomal protein L13 |
| rplN | J | COG0093 | TIGR01067 | 50S ribosomal protein L14 |
| rplO | J | COG0200 | TIGR01071 | 50S ribosomal protein L15 |
| rplP | J | COG0197 | TIGR01164 | 50S ribosomal protein L16 |
| rplQ | J | COG0203 | TIGR00059 | 50S ribosomal protein L17 |
| rplR | J | COG0256 | TIGR00060 | 50S ribosomal protein L18 |
| rplS | J | COG0335 | TIGR01024 | 50S ribosomal protein L19 |
| rplT | J | COG0292 | TIGR01032 | 50S ribosomal protein L20 |
| rplU | J | COG0261 | TIGR00061 | 50S ribosomal protein L21 |
| rplV | J | COG0091 | TIGR01044 | 50S ribosomal protein L22 |
| rplW | J | COG0089 | PF00276 | 50S ribosomal protein L23 |
| rplX | J | COG0198 | TIGR01079 | 50S ribosomal protein L24 |
| rpmA | J | COG0211 | TIGR00062 | 50S ribosomal protein L27 |
| rpmC | J | COG0255 | TIGR00012 | 50S ribosomal protein L29 |
| rpmI | J | COG0291 | TIGR00001 | 50S ribosomal protein L35 |
| rpoA | K | COG0202 | TIGR02027 | DNA-directed RNA polymerase subunit alpha |
| rpoB | K | COG0085 | TIGR02013 | DNA-directed RNA polymerase subunit beta |
| rpoC | K | COG0086 | TIGR02386 | DNA-directed RNA polymerase subunit beta’ |
| rpsB | J | COG0052 | TIGR01011 | 30S ribosomal protein S2 |
| rpsC | J | COG0092 | TIGR01009 | 30S ribosomal protein S3 |
| rpsD | J | COG0522 | TIGR01017 | 30S ribosomal protein S4 |
| rpsE | J | COG0098 | TIGR01021 | 30S ribosomal protein S5 |
| rpsF | J | COG0360 | TIGR00166/PF01250 | 30S ribosomal protein S6 |
| rpsG | J | COG0049 | TIGR01029 | 30S ribosomal protein S7 |
| rpsH | J | COG0096 | PF00410 | 30S ribosomal protein S8 |
| rpsI | J | COG0103 | PF00380 | 30S ribosomal protein S9 |
| rpsJ | J | COG0051 | TIGR01049 | 30S ribosomal protein S10 |
| rpsK | J | COG0100 | TIGR03632 | 30S ribosomal protein S11 |
| rpsL | J | COG0048 | TIGR00981 | 30S ribosomal protein S12 |
| rpsM | J | COG0099 | TIGR03631 | 30S ribosomal protein S13 |
| rpsO | J | COG0184 | TIGR00952 | 30S ribosomal protein S15 |
| rpsP | J | COG0228 | TIGR00002 | 30S ribosomal protein S16 |
| rpsQ | J | COG0186 | TIGR03635 | 30S ribosomal protein S17 |
| rpsR | J | COG0238 | TIGR00165 | 30S ribosomal protein S18 |
| rpsS | J | COG0185 | TIGR01050 | 30S ribosomal protein S19 |
| rpsT | J | COG0268 | TIGR00029 | 30S ribosomal protein S20 |
| secA | U | COG0653 | TIGR00963 | Protein translocase subunit SecA |
| secG | U | COG1314 | TIGR00810 | Protein-export membrane protein SecG |
| secY | U | COG0201 | TIGR00967 | Protein translocase subunit SecY |
| serS | J | COG0172 | TIGR00414 | Serine-tRNA ligase |
| smpB | O | COG0691 | TIGR00086 | SsrA-binding protein |
| tig | O | COG0544 | TIGR00115 | Trigger factor |
| tilS | J | COG0037 | TIGR02432 | tRNA(Ile)-lysidine synthase |
| truB | J | COG0130 | TIGR00431 | tRNA pseudouridine synthase B |
| tsaD | J | COG0533 | TIGR03723 | tRNA N6-adenosine threonylcarbamoyltransferase |
| tsf | J | COG0264 | TIGR00116/PF00889 | Elongation factor Ts |
| uvrB | L | COG0556 | TIGR00631 | UvrABC system protein B |
| ybeY | J | COG0319 | TIGR00043 | Endoribonuclease YbeY |
| ychF | J | COG0012 | TIGR00092 | Ribosome-binding ATPase YchF |
Last updated April 5, 2018
