TABLE 1.
In silico analysis of the L. monocytogenes TCSsa
| Histidine kinase | HK group | TMD(s) (extracytoplasmic loop) | Additional sensing domain | Response regulator | Output domain |
|---|---|---|---|---|---|
| AgrB (Lmo0050) | 6 | AgrA (Lmo0051) | LytTr | ||
| YycG (Lmo0288) | IIIA | 2 (158) | PAS | YycF (Lmo0287) | OmpR |
| CheA (Lmo0692) | CheY (Lmo0691) | ||||
| Lmo1021 | II | 2 (22) | Lmo1022 | NarL | |
| Lmo1061 | IIIA | 2 (125) | Lmo1060 | OmpR | |
| Lmo1173 | Lmo1172 | ANTAR | |||
| LisK (Lmo1378) | IIIA | 2 (144) | LisR (Lmo1377) | OmpR | |
| Lmo1508 | IIIA | 2 (142) | Lmo1507 | OmpR | |
| Lmo1741 | IIIA | 2 (10) | Lmo1745 | OmpR | |
| ResE (Lmo1947) | IIIA | 2 (146) | ResD (Lmo1948) | OmpR | |
| Lmo2011 | I | 2 (252) | Lmo2010 | AraC-HTH | |
| CesK (Lmo2421) | IIIA | 2 (40) | CesR (Lmo2422) | OmpR | |
| PhoR (Lmo2500) | IIIA | 2 (147) | PAS | PhoP (Lmo2501) | OmpR |
| DegU (Lmo2515) | NarL | ||||
| Lmo2582 | IIIA | 2 (137) | Lmo2583 | OmpR | |
| KdpD (Lmo2679) | IIIA | 4 | KdpE (Lmo2678) | OmpR |
Classification of the histidine kinases is based on the sequence motifs surrounding the phosphorylated histidine residue according to an analysis of Fabret and Hoch (10), who compared the TCS proteins of B. subtilis. For the prediction of transmembrane domains (TMDs) the “DAS”-Transmembrane Prediction server (http://www.sbc.su.se/∼miklos/DAS/tmdas.cgi) was used. When two TMDs have been predicted in the N-terminal domain, the size of the extracytoplasmic loops (in amino acids) confined by the TMDs is given in parentheses. The output domains are classified as OmpR- or NarL-like according to structural similarities with the E. coli proteins (10). The prediction of PAS domains (41) in the sensor proteins and DNA-binding motifs in the response regulators differing from the OmpR and NarL types was performed using SMART—Simple Modular Architecture Research Tool (http://smart.embl-heidelberg.de).