| COG0271 | Stress-induced morphogen (activity unknown) |
| COG0317 | Guanosine polyphosphate pyrophosphohydrolases/synthetases |
| COG0394 | Protein-tyrosine-phosphatase |
| COG0467 | RecA-superfamily ATPases implicated in signal transduction |
| COG0478 | RIO-like serine/threonine protein kinase fused to N-terminal HTH domain |
| COG0515 | Serine/threonine protein kinase |
| COG0589 | Universal stress protein UspA and related nucleotide-binding proteins |
| COG0631 | Serine/threonine protein phosphatase |
| COG0639 | Diadenosine tetraphosphatase and related serine/threonine protein phosphatases |
| COG0642 | Signal transduction histidine kinase |
| COG0643 | Chemotaxis protein histidine kinase and related kinases |
| COG0664 | cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases |
| COG0745 | Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain |
| COG0784 | FOG: CheY-like receiver |
| COG0834 | ABC-type amino acid transport/signal transduction systems, periplasmic component/domain |
| COG0835 | Chemotaxis signal transduction protein |
| COG0840 | Methyl-accepting chemotaxis protein |
| COG1217 | Predicted membrane GTPase involved in stress response |
| COG1221 | Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain |
| COG1352 | Methylase of chemotaxis methyl-accepting proteins |
| COG1366 | Anti-anti-sigma regulatory factor (antagonist of anti-sigma factor) |
| COG1391 | Glutamine synthetase adenylyltransferase |
| COG1493 | Serine kinase of the HPr protein, regulates carbohydrate metabolism |
| COG1551 | Carbon storage regulator (could also regulate swarming and quorum sensing) |
| COG1639 | Predicted signal transduction protein |
| COG1702 | Phosphate starvation-inducible protein PhoH, predicted ATPase |
| COG1716 | FOG: FHA domain |
| COG1718 | Serine/threonine protein kinase involved in cell cycle control |
| COG1734 | DnaK suppressor protein |
| COG1762 | Phosphotransferase system mannitol/fructose-specific IIA domain (Ntr-type) |
| COG1776 | Chemotaxis protein CheC, inhibitor of MCP methylation |
| COG1842 | Phage shock protein A (IM30), suppresses sigma54-dependent transcription |
| COG1854 | LuxS protein involved in autoinducer AI2 synthesis |
| COG1871 | Chemotaxis protein; stimulates methylation of MCP proteins |
| COG1875 | Predicted ATPase related to phosphate starvation-inducible protein PhoH |
| COG1956 | GAF domain-containing protein |
| COG1966 | Carbon starvation protein, predicted membrane protein |
| COG1974 | SOS-response transcriptional repressors (RecA-mediated autopeptidases) |
| COG1983 | Putative stress-responsive transcriptional regulator |
| COG2062 | Phosphohistidine phosphatase SixA |
| COG2112 | Predicted Ser/Thr protein kinase |
| COG2114 | Adenylate cyclase, family 3 (some proteins contain HAMP domain) |
| COG2172 | Anti-sigma regulatory factor (Ser/Thr protein kinase) |
| COG2197 | Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain |
| COG2198 | FOG: HPt domain |
| COG2199 | FOG: GGDEF domain |
| COG2200 | FOG: EAL domain |
| COG2201 | Chemotaxis response regulator containing a CheY-like receiver domain and a methylesterase domain |
| COG2202 | FOG: PAS/PAC domain |
| COG2203 | FOG: GAF domain |
| COG2204 | Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains |
| COG2205 | Osmosensitive K+ channel histidine kinase |
| COG2206 | HD-GYP domain |
| COG2208 | Serine phosphatase RsbU, regulator of sigma subunit |
| COG2310 | Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 |
| COG2336 | Growth regulator |
| COG2337 | Growth inhibitor |
| COG2365 | Protein tyrosine/serine phosphatase |
| COG2453 | Predicted protein-tyrosine phosphatase |
| COG2508 | Regulator of polyketide synthase expression |
| COG2766 | Putative Ser protein kinase |
| COG2770 | FOG: HAMP domain |
| COG2905 | Predicted signal-transduction protein containing cAMP-binding and CBS domains |
| COG2972 | Predicted signal transduction protein with a C-terminal ATPase domain |
| COG3026 | Negative regulator of sigma E activity |
| COG3073 | Negative regulator of sigma E activity |
| COG3086 | Positive regulator of sigma E activity |
| COG3103 | SH3 domain protein |
| COG3109 | Activator of osmoprotectant transporter ProP |
| COG3143 | Chemotaxis protein |
| COG3275 | Putative regulator of cell autolysis |
| COG3279 | Response regulator of the LytR/AlgR family |
| COG3290 | Signal transduction histidine kinase regulating citrate/malate metabolism |
| COG3292 | Predicted periplasmic ligand-binding sensor domain |
| COG3300 | MHYT domain (predicted integral membrane sensor domain) |
| COG3322 | Predicted periplasmic ligand-binding sensor domain |
| COG3434 | Predicted signal transduction protein containing EAL and modified HD-GYP domains |
| COG3437 | Response regulator containing a CheY-like receiver domain and an HD-GYP domain |
| COG3447 | Predicted integral membrane sensor domain |
| COG3448 | CBS-domain-containing membrane protein |
| COG3452 | Predicted periplasmic ligand-binding sensor domain |
| COG3456 | Uncharacterized conserved protein, contains FHA domain |
| COG3476 | Tryptophan-rich sensory protein (mitochondrial benzodiazepine receptor homolog) |
| COG3480 | Predicted secreted protein containing a PDZ domain |
| COG3604 | Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains |
| COG3605 | Signal transduction protein containing GAF and PtsI domains |
| COG3614 | Predicted periplasmic ligand-binding sensor domain |
| COG3629 | DNA-binding transcriptional activator of the SARP family |
| COG3642 | Mn2+-dependent serine/threonine protein kinase |
| COG3678 | P pilus assembly/Cpx signaling pathway, periplasmic inhibitor/zinc-resistance associated protein |
| COG3706 | Response regulator containing a CheY-like receiver domain and a GGDEF domain |
| COG3707 | Response regulator with putative antiterminator output domain |
| COG3712 | Fe2+-dicitrate sensor, membrane component |
| COG3806 | Anti-sigma factor |
| COG3829 | Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains |
| COG3830 | ACT domain-containing protein |
| COG3835 | Sugar diacid utilization regulator |
| COG3848 | Phosphohistidine swiveling domain |
| COG3850 | Signal transduction histidine kinase, nitrate/nitrite-specific |
| COG3851 | Signal transduction histidine kinase, glucose-6-phosphate specific |
| COG3852 | Signal transduction histidine kinase, nitrogen specific |
| COG3887 | Predicted signaling protein consisting of a modified GGDEF domain and a DHH domain |
| COG3916 | N-acyl-L-homoserine lactone synthetase |
| COG3920 | Signal transduction histidine kinase |
| COG3947 | Response regulator containing CheY-like receiver and SARP domains |
| COG4191 | Signal transduction histidine kinase regulating C4-dicarboxylate transport system |
| COG4192 | Signal transduction histidine kinase regulating phosphoglycerate transport system |
| COG4219 | Antirepressor regulating drug resistance, predicted signal transduction N-terminal membrane component |
| COG4250 | Predicted sensor protein/domain |
| COG4251 | Bacteriophytochrome (light-regulated signal transduction histidine kinase) |
| COG4252 | Predicted transmembrane sensor domain |
| COG4512 | Membrane protein putatively involved in post-translational modification of the autoinducing quorum-sensing peptide |
| COG4564 | Signal transduction histidine kinase |
| COG4565 | Response regulator of citrate/malate metabolism |
| COG4566 | Response regulator |
| COG4567 | Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain |
| COG4579 | Isocitrate dehydrogenase kinase/phosphatase |
| COG4585 | Signal transduction histidine kinase |
| COG4650 | Sigma54-dependent transcription regulator containing an AAA-type ATPase domain and a DNA-binding domain |
| COG4725 | Transcriptional activator, adenine-specific DNA methyltransferase |
| COG4753 | Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain |
| COG4862 | Negative regulator of genetic competence, sporulation and motility |
| COG4936 | Predicted sensor domain |
| COG4943 | Predicted signal transduction protein containing sensor and EAL domains |
| COG4978 | Transcriptional regulator, effector-binding domain/component |
| COG4999 | Uncharacterized domain of BarA-like signal transduction histidine kinases |
| COG5000 | Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation |
| COG5001 | Predicted signal transduction protein containing a membrane domain, an EAL and a GGDEF domain |
| COG5002 | Signal transduction histidine kinase |
| COG5032 | Phosphatidylinositol kinase and protein kinases of the PI-3 kinase family |
| COG5035 | Cell cycle control protein |
| COG5037 | Gluconate transport-inducing protein |
| COG5040 | 14-3-3 family protein |
| COG5041 | Casein kinase II, beta subunit |
| COG5057 | Phosphotyrosyl phosphatase activator |
| COG5126 | Ca2+-binding protein (EF-Hand superfamily) |
| COG5130 | Prenylated rab acceptor 1 and related proteins |
| COG5170 | Serine/threonine protein phosphatase 2A, regulatory subunit |
| COG5212 | Low-affinity cAMP phosphodiesterase |
| COG5238 | Ran GTPase-activating protein (RanGAP) involved in mRNA processing and transport |
| COG5253 | Phosphatidylinositol-4-phosphate 5-kinase |
| COG5261 | Protein involved in regulation of cellular morphogenesis/cytokinesis |
| COG5278 | Predicted periplasmic ligand-binding sensor domain |
| COG5329 | Phosphoinositide polyphosphatase (Sac family) |
| COG5408 | SPX domain-containing protein |
| COG5409 | EXS domain-containing protein |
| COG5411 | Phosphatidylinositol 5-phosphate phosphatase |
| COG5422 | RhoGEF, Guanine nucleotide exchange factor for Rho/Rac/Cdc42-like GTPases |
| COG5432 | RING-finger-containing E3 ubiquitin ligase |
| COG5585 | NAD+--asparagine ADP-ribosyltransferase |
| COG5599 | Protein tyrosine phosphatase |
| COG5635 | Predicted NTPase (NACHT family) |
