Table 1.
Proteins co-isolated with SecA2. All proteins that have been described to be SecA2-dependent [5,16,30] are highlighted in blue. Glycolytic proteins are underlined.
| Lmo Nr. | Gene Name | Protein Name | Function (COGs) * | emPAI * | mol % * |
|---|---|---|---|---|---|
| lmo0583 | secA2 | Protein translocase subunit SecA 2 | Intracellular trafficking and secretion | 5.81 | 6.75 |
| lmo2632 | rplC | 50S ribosomal protein L3 | Translation | 4.75 | 4.69 |
| lmo1934 | hup | DNA-binding protein HU | Replication. recombination and repair | 3.54 | 4.69 |
| lmo2629 | rplB | 50S ribosomal protein L2 | Translation | 3.20 | 3.87 |
| lmo2653 * | tuf | Elongation factor Tu | Translation | 2.78 | 3.69 |
| lmo1830 | Short-chain dehydrogenase | Lipid transport and metabolism; Secondary metabolites biosynthesis. transport and catabolism; General function prediction only; |
1.73 | 2.41 | |
| lmo1783 | rplT | 50S ribosomal protein L20 | Translation | 2.08 | 2.26 |
| lmo1072 | pycA | Pyruvate carboxylase | Energy production and conversion | 2.08 | 2.20 |
| lmo1356 | Acetyl-CoA carboxylase biotin carboxyl carrier protein | Lipid transport and metabolism | 1.70 | 2.16 | |
| lmo1330 | rpsO | 30S ribosomal protein S15 | Translation | 2.32 | 2.15 |
| lmo2624 | rpmC | 50S ribosomal protein L29 | Translation | 1.60 | 2.09 |
| lmo2016 | cspB | Cold shock-like protein CspLB | Transcription | 1.51 | 1.98 |
| lmo1473 * | dnaK | Chaperone protein DnaK | Posttranslational modification. protein turnover. chaperones | 1.72 | 1.96 |
| lmo2631 | rplD | 50S ribosomal protein L4 | Translation | 1.53 | 1.78 |
| lmo2459 | gap | Glyceraldehyde-3-phosphate dehydrogenase | Carbohydrate transport and metabolism | 1.25 | 1.60 |
| lmo1596 | rpsD | 30S ribosomal protein S4 | Translation | 1.47 | 1.37 |
| lmo1055 | PdhD | Dihydrolipoamide dehydrogenase | Energy production and conversion | 0.91 | 1.33 |
| lmo2625 | rplP | 50S ribosomal protein L16 | Translation | 1.00 | 1.29 |
| lmo1542 | rplU | 50S ribosomal protein L21 | Translation | 0.93 | 1.13 |
| lmo2455 * | eno | Enolase | Carbohydrate transport and metabolism | 0.77 | 1.10 |
| lmo1658 | rpsB | 30S ribosomal protein S2 | Translation | 0.94 | 1.09 |
| lmo0972 | dltC | D-alanine--poly(phosphoribitol) ligase subunit 2 | Cell wall/membrane biogenesis | 0.98 | 1.02 |
| lmo2613 | rplO | 50S ribosomal protein L15 | Translation | 0.75 | 0.90 |
| lmo2785 | kat | Catalase | Inorganic ion transport and metabolism | 0.65 | 0.90 |
| lmo1657 | tsf | Elongation factor Ts | Translation | 0.70 | 0.88 |
| lmo2654 | fus | Elongation factor G | Translation | 0.71 | 0.78 |
| lmo2630 | rplW | 50S ribosomal protein L23 | Translation | 0.62 | 0.77 |
| lmo2969 | groES | 10 kDa chaperonin | not in COGs | 0.46 | 0.75 |
| lmo2483 | hprK | Phosphocarrier protein HPr | Signal transduction mechanisms | 0.70 | 0.73 |
| lmo1920 | Copper chaperone CopZ | Function unknown | 0.52 | 0.64 | |
| lmo1364 | cspL | Cold shock protein CspA | Transcription | 0.47 | 0.61 |
| lmo0044 | rpsF | 30S ribosomal protein S6 | Translation | 0.47 | 0.61 |
| lmo2608 | rpsM | 30S ribosomal protein S13 | Translation | 0.39 | 0.51 |
| lmo2068 * | groEL | 60 kDa chaperonin | Posttranslational modification. protein turnover. chaperones | 0.40 | 0.50 |
| lmo2703 | similar to B. subtilis YaaK protein | Function unknown | 0.39 | 0.48 | |
| lmo2182 | Iron ABC transporter ATP-binding protein | Inorganic ion transport and metabolism; Coenzyme transport and metabolism; | 0.37 | 0.46 | |
| lmo1797 | rpsP | 30S ribosomal protein S16 | Translation | 0.39 | 0.44 |
| lmo0866 | cshA | DEAD-box ATP-dependent RNA helicase CshA | Replication. recombination and repair; Transcription; Translation; | 0.32 | 0.41 |
| lmo2219 | prsA2 | Foldase protein PrsA 2 | Posttranslational modification. protein turnover. chaperones | 0.30 | 0.34 |
| lmo1398 | recA | Protein RecA | Replication. recombination and repair | 0.30 | 0.34 |
| lmo0249 | rplA | Ribosomal protein (Fragment) | Translation | 0.26 | 0.34 |
| lmo2511 | hpf | Ribosome hibernation promoting factor | Translation | 0.26 | 0.32 |
| lmo1373 | 2-oxoisovalerate dehydrogenase | Energy production and conversion | 0.30 | 0.31 | |
| lmo1388 * | tcsA | CD4+ T-cell-stimulating antigen | General function prediction only | 0.25 | 0.30 |
| lmo0237 | gltX | Glutamate--tRNA ligase | Translation | 0.20 | 0.29 |
| lmo1785 | infC | Initiation factor IF-3 | Translation | 0.28 | 0.29 |
| lmo1267 | tig | Trigger factor | Posttranslational modification. protein turnover. chaperones | 0.19 | 0.28 |
| lmo1054 * | pdhC | Pyruvate dehydrogenase E2 component (Dihydrolipoamide acetyltransferase) | Energy production and conversion | 0.20 | 0.26 |
| lmo2615 | rpsE | 30S ribosomal protein S5 | Translation | 0.19 | 0.25 |
| lmo0135 | Putative oligopeptide ABC transporter. OppA | Amino acid transport and metabolism | 0.21 | 0.24 | |
| lmo2457 | tpiA | Triosephosphate isomerase | Carbohydrate transport and metabolism | 0.21 | 0.24 |
| lmo1579 | Alanine dehydrogenase | Amino acid transport and metabolism | 0.16 | 0.21 | |
| lmo1331 | pnpA | Polyribonucleotide nucleotidyltransferase | Translation | 0.19 | 0.21 |
| lmo2799 | GTP-binding protein YchF | Carbohydrate transport and metabolism | 0.23 | 0.21 | |
| lmo1664 | metK | S-adenosylmethionine synthase | Coenzyme transport and metabolism | 0.20 | 0.20 |
| lmo1439 * | sodA | Superoxide dismutase | Inorganic ion transport and metabolism | 0.13 | 0.20 |
| lmo2597 | rplM | 50S ribosomal protein L13 | Translation | 0.17 | 0.20 |
| lmo2510 | secA | Protein translocase subunit SecA 1 | Intracellular trafficking and secretion | 0.21 | 0.19 |
| lmo2618 | rpsH | 30S ribosomal protein S8 | Translation | 0.16 | 0.19 |
| lmo0539 | Tagatose 1.6-diphosphate aldolase | Carbohydrate transport and metabolism | 0.13 | 0.18 | |
| lmo2637 * | FMN-binding domain protein | Function unknown | 0.13 | 0.16 | |
| lmo2367 | pgi | Glucose-6-phosphate isomerase | Carbohydrate transport and metabolism | 0.11 | 0.16 |
| lmo1571 | pfkA | ATP-dependent 6-phosphofructokinase | Carbohydrate transport and metabolism | 0.12 | 0.15 |
| lmo0223 | cysK | Cysteine synthase | Amino acid transport and metabolism | 0.12 | 0.15 |
| lmo2620 | rplE | 50S ribosomal protein L5 | Translation | 0.12 | 0.15 |
| lmo0416 | Uncharacterized protein. DNA-binding. putative regulator | Transcription | 0.14 | 0.14 | |
| lmo1052 | pdhA | Pyruvate dehydrogenase (Acetyl-transferring) E1 component. alpha subunit | Energy production and conversion | 0.10 | 0.13 |
| lmo2458 | pgk | Phosphoglycerate kinase | Carbohydrate transport and metabolism | 0.09 | 0.13 |
| lmo2206 | clpB | Chaperone protein ClpB | Posttranslational modification. protein turnover. chaperones | 0.12 | 0.13 |
| lmo1357 | acetyl-CoA carboxylase biotin carboxylase subunit | Lipid transport and metabolism | 0.12 | 0.11 | |
| lmo1217 | Putative aminopeptidase. M42 family | Carbohydrate transport and metabolism | 0.09 | 0.11 | |
| lmo1928 | aroF | Chorismate synthase | Amino acid transport and metabolism | 0.08 | 0.10 |
| lmo2559 | pyrG | CTP synthase | Nucleotide transport and metabolism | 0.09 | 0.09 |
| lmo2456 | pgm | 2.3-bisphosphoglycerate-independent phosphoglycerate mutase | Carbohydrate transport and metabolism | 0.07 | 0.09 |
| lmo1938 | rpsA | 30S ribosomal protein S1 homolog | Translation | 0.08 | 0.08 |
| lmo1755 | gatA | Glutamyl-tRNA(Gln) amidotransferase subunit A | Translation | 0.07 | 0.08 |
| lmo0727 | glmS | Glutamine--fructose-6-phosphate aminotransferase [isomerizing] | Cell wall/membrane biogenesis | 0.07 | 0.08 |
| lmo1286 | parE | DNA topoisomerase 4 subunit B | Replication. recombination and repair | 0.06 | 0.07 |
| lmo0258 * | rpoB | RNA polymerase beta subunit | Transcription | 0.05 | 0.06 |
| lmo1003 | ptsI | Phosphoenolpyruvate-protein phosphotransferase | Carbohydrate transport and metabolism | 0.05 | 0.06 |
| lmo1634 * | lap | Aldehyde-alcohol dehydrogenase | Energy production and conversion | 0.05 | 0.06 |
| lmo0259 * | rpoC | DNA-directed RNA polymerase subunit beta’ | Transcription | 0.05 | 0.05 |
| lmo1504 | alaS | Alanine—tRNA ligase | Translation | 0.04 | 0.05 |
| lmo2019 | ileS | Isoleucine—tRNA ligase | Translation | 0.03 | 0.04 |
| lmo0007 | gyrA | DNA gyrase subunit A | Replication. recombination and repair | 0.03 | 0.03 |
* COGs = (Clusters of Orthologous Groups of proteins); emPAI = (Exponentially modified protein abundance Index); (mol %) = emPAI/∑ (emPAI) ×100 (57).