title: Study of interactions between Mycobacterium tuberculosis proteins: SigK and anti-SigK.
abstract: The development of novel antituberculosis therapeutic molecules is a global health concern. Complex gene expression in Mycobacterium tuberculosis is mediated mainly by various sigma factors. The SigK protein binds to RNA polymerase, facilitating the expression of genes encoding the antigenic proteins mpt70 and mpt83. The anti-SigK protein is a negative regulator of SigK and inhibits the initiation of transcription. This study focuses on the interactions between SigK and the N-terminal domain of anti-SigK. The 3D structures of SigK (187 residues) and the N-terminal domain of anti-SigK (92 residues) are elucidated, using the crystal structures of the A and B chains of sigma E and anti-sigma ChrR of Rhodobacter spheroides (PDB code: 2Q1Z) as templates, respectively. Molecular dynamic simulations were performed for the SigK and anti-SigK proteins to refine their structures. The predicted active sites of SigK and anti-SigK and the results of protein-protein docking studies revealed the residues that are important for binding. The models generated and the binding site residues identified in this work throw new light on the interactions between the sigma K and anti-sigma K proteins, which should further aid the modulation of antigenic protein production in Mycobacterium tuberculosis.
authors.affiliation: Department of Chemistry, Nizam College, Osmania University, Basheerbagh, Hyderabad 500001 Andhra Pradesh, India. mvasavi2003@gmail.com
authors.forename: Vasavi
authors.initials: V
authors.lastname: Malkhed
authors.forename: Bargavi
authors.initials: B
authors.lastname: Gudlur
authors.forename: Bhargavi
authors.initials: B
authors.lastname: Kondagari
authors.forename: Ramasree
authors.initials: R
authors.lastname: Dulapalli
authors.forename: Uma
authors.initials: U
authors.lastname: Vuruputuri
mesh_terms: D000595:Amino Acid Sequence; D000942:Antigens, Bacterial / Q000235:genetics / Q000378:metabolism; D000995:Antitubercular Agents / Q000737:chemistry / Q000627:therapeutic use; D001426:Bacterial Proteins / Q000737:chemistry* / Q000235:genetics / Q000378:metabolism; D001665:Binding Sites; D015964:Gene Expression Regulation, Bacterial; D008565:Membrane Proteins / Q000235:genetics / Q000378:metabolism; D008958:Models, Molecular; D056004:Molecular Dynamics Simulation; D008969:Molecular Sequence Data; D009163:Mycobacterium bovis; D009169:Mycobacterium tuberculosis / Q000737:chemistry* / Q000235:genetics / Q000378:metabolism; D011485:Protein Binding; D017434:Protein Structure, Tertiary; D012097:Repressor Proteins / Q000737:chemistry* / Q000235:genetics / Q000378:metabolism; D012242:Rhodobacter sphaeroides; D017386:Sequence Homology, Amino Acid; D012808:Sigma Factor / Q000737:chemistry* / Q000235:genetics / Q000378:metabolism; D014157:Transcription Factors / Q000737:chemistry* / Q000235:genetics / Q000378:metabolism; D014158:Transcription, Genetic; D014376:Tuberculosis / Q000188:drug therapy / Q000382:microbiology
chemical_list: D000942:Antigens, Bacterial; D000995:Antitubercular Agents; D001426:Bacterial Proteins; C094904:MPB83 protein, Mycobacterium; D008565:Membrane Proteins; D012097:Repressor Proteins; D012808:Sigma Factor; D014157:Transcription Factors; C060216:MPB70 protein, Mycobacterium bovis