TABLE 1.
Protein classifications of EGD-specific proteins, F2365-specific proteins, and the common set of proteins based on ListiList categories
| Function or description | ListiList category no. | No. of proteins
|
||
|---|---|---|---|---|
| EGD | F2365 | Common | ||
| Cell envelope and cellular processes | 1 | 141 | 73 | 240 |
| Cell wall | 1.1 | 24 | 10 | 43 |
| Transport/binding proteins and lipoproteins | 1.2 | 77 | 40 | 105 |
| Sensors (signal transduction) | 1.3 | 5 | 0 | 10 |
| Membrane bioenergetics | 1.4 | 7 | 4 | 21 |
| Mobility and chemotaxis | 1.5 | 3 | 3 | 12 |
| Protein secretion | 1.6 | 0 | 1 | 7 |
| Cell division | 1.7 | 6 | 3 | 9 |
| Cell surface proteins | 1.8 | 19 | 12 | 31 |
| Soluble internalin | 1.9 | 0 | 0 | 2 |
| Transformation/competence | 1.10 | 0 | 0 | 0 |
| Intermediary metabolism | 2 | 132 | 73 | 286 |
| Metabolism of carbohydrates and related molecules | 2.1 | 53 | 24 | 125 |
| Specific pathways | 2.1.1 | 50 | 24 | 104 |
| Main glycolytic pathways | 2.1.2 | 2 | 0 | 16 |
| Tricarboxylic acid cycle | 2.1.3 | 1 | 0 | 3 |
| Metabolism of amino acids and related molecules | 2.2 | 32 | 27 | 63 |
| Metabolism of nucleotides and nucleic acids | 2.3 | 6 | 6 | 35 |
| Metabolism of lipids | 2.4 | 16 | 6 | 23 |
| Metabolism of coenzymes and prosthetic groups | 2.5 | 23 | 10 | 36 |
| Metabolism of phosphate | 2.6 | 2 | 0 | 4 |
| Information pathways | 3 | 107 | 49 | 224 |
| DNA replication | 3.1 | 7 | 4 | 11 |
| DNA restriction/modification and repair | 3.2 | 12 | 2 | 17 |
| DNA recombination | 3.3 | 5 | 1 | 10 |
| DNA packaging and segregation | 3.4 | 1 | 0 | 10 |
| RNA synthesis | 3.5 | 54 | 26 | 91 |
| Initiation | 3.5.1 | 3 | 1 | 0 |
| Regulation | 3.5.2 | 48 | 25 | 81 |
| Elongation | 3.5.3 | 2 | 0 | 8 |
| Termination | 3.5.4 | 1 | 0 | 2 |
| RNA modification | 3.6 | 8 | 4 | 14 |
| Protein synthesis | 3.7 | 15 | 9 | 57 |
| Ribosomal proteins | 3.7.1 | 11 | 6 | 27 |
| Aminoacyl-tRNA synthetases | 3.7.2 | 3 | 2 | 19 |
| Initiation | 3.7.3 | 0 | 0 | 5 |
| Elongation | 3.7.4 | 1 | 1 | 4 |
| Termination | 3.7.5 | 0 | 0 | 2 |
| Protein modification | 3.8 | 4 | 3 | 9 |
| Protein folding | 3.9 | 1 | 0 | 5 |
| Other functions | 4 | 53 | 12 | 45 |
| Adaptation to atypical conditions | 4.1 | 2 | 6 | 22 |
| Detoxification | 4.2 | 9 | 2 | 9 |
| Phage-related functions | 4.3 | 28 | 2 | 3 |
| Transposon and insertion sequence | 4.4 | 10 | 1 | 1 |
| Miscellaneous | 4.5 | 4 | 1 | 10 |
| Similar to unknown proteins | 5 | 163 | 71 | 179 |
| From Listeria | 5.1 | 20 | 5 | 11 |
| From other organisms | 5.2 | 143 | 66 | 168 |
| No similarity | 6 | 67 | 20 | 44 |
| Not identified in ListiList | 7 | 14 | 52 | 59 |