title: Homology modelling of RNA polymerase and associated transcription factors from Bacillus subtilis.
abstract: RNA polymerase (RNAP) is the central enzyme of transcription and requires interaction with transcription factors in vivo for correct processivity. Both the transcription initiation complex and the ternary elongation complex are stabilised by and require protein-protein interactions between the various components involved. These interactions may form the basis for rational design of small peptide mimics of one or more proteins involved in order to inhibit protein-protein interactions and thus transcription. Here, we present homology models of the model Gram positive organism Bacillus subtilis RNA polymerase in the core and holoenzyme forms. Interactions between RNA polymerase and the transcription factor sigmaA were investigated in order to design peptide mimics of the major interactions.
authors.affiliation: School of Environmental and Life Sciences, The University of Newcastle, Biology Building, Callaghan, NSW 2308, Australia.
authors.forename: Iain J A
authors.initials: IJ
authors.lastname: MacDougall
authors.forename: Peter J
authors.initials: PJ
authors.lastname: Lewis
authors.forename: Renate
authors.initials: R
authors.lastname: Griffith
mesh_terms: D001412:Bacillus subtilis / Q000201:enzymology* / Q000235:genetics; D001426:Bacterial Proteins / Q000037:antagonists & inhibitors / Q000737:chemistry*; D012321:DNA-Directed RNA Polymerases / Q000037:antagonists & inhibitors / Q000737:chemistry*; D020035:Holoenzymes / Q000737:chemistry; D008958:Models, Molecular; D018716:Molecular Mimicry; D010455:Peptides / Q000737:chemistry / Q000494:pharmacology; D011487:Protein Conformation; D012808:Sigma Factor / Q000037:antagonists & inhibitors / Q000737:chemistry*; D040681:Structural Homology, Protein; D014157:Transcription Factors / Q000737:chemistry; D014158:Transcription, Genetic
chemical_list: D001426:Bacterial Proteins; D020035:Holoenzymes; D010455:Peptides; D012808:Sigma Factor; D014157:Transcription Factors; D012321:DNA-Directed RNA Polymerases