title: Sub-classification of response regulators using the surface characteristics of their receiver domains.
abstract: The omnipresent bacterial switch known as a two-component system is comprised of a response regulator and a sensor kinase with which it interacts. Sensor kinases have been classified and further sub-classified into groups based on their sequence similarity, loop lengths and domain organization. Response regulators have been classified predominantly by the identity and function of their output domains. Here, comparative based homology modeling of the receiver domains of the OmpR sub-family of response regulators in Bacillus subtilis and Escherichia coli suggests further sub-classification is possible. A color-coded scale is used to show trends in surface hydrophobicity. For the OmpR receiver domains modeled these trends allow further sub-classification. The specific surface regions used for this sub-classification procedure correlate with clusters of residues that are important for interaction with cognate four helix bundle HisKA/Hpt domains.
authors: Department of Molecular and Structural Biochemistry, North Carolina State University, 128 Polk Hall, Campus Box 7622, Raleigh, NC 27695, USA.
authors: Douglas J
authors: DJ
authors: Kojetin
authors: Richele J
authors: RJ
authors: Thompson
authors: John
authors: J
authors: Cavanagh
mesh_terms: D001412:Bacillus subtilis / Q000737:chemistry / Q000378:metabolism; D001426:Bacterial Proteins / Q000737:chemistry* / Q000145:classification* / Q000235:genetics / Q000378:metabolism; D004926:Escherichia coli / Q000737:chemistry / Q000378:metabolism; D005809:Genes, Regulator; D000071677:Histidine Kinase; D057927:Hydrophobic and Hydrophilic Interactions; D008958:Models, Molecular; D011494:Protein Kinases / Q000235:genetics / Q000378:metabolism; D017433:Protein Structure, Secondary; D017434:Protein Structure, Tertiary; D040681:Structural Homology, Protein; D015534:Trans-Activators / Q000737:chemistry* / Q000145:classification* / Q000235:genetics
chemical_list: D001426:Bacterial Proteins; D015534:Trans-Activators; C112177:osmolarity response regulator proteins; D011494:Protein Kinases; D000071677:Histidine Kinase