title: Insight into the Conformational Variations in SoxYZ Protein Complex from Two Different Members of the β-Proteobacterial Family Involved in Sulfur Oxidation.
abstract: Sulfur anions serve as the important environmental pollutants. Microbes use hydrogen sulfide in different redox reactions and thus make the environment pollution-free. The sulfur redox processes are performed by a gene cluster called the sox operon, possessed by a diverse set of microorganisms. However, most of the previous studies were confined to α-proteobacteria. In this work, we tried to elucidate the mechanistic details of sulfur oxidation in β-proteobacteria. We compared the molecular mechanism of sulfur oxidation process using Dechloromonas aromatica and Thiobacillus denitrificans. Dechloromonas aromatica possesses the entire sox operon, whereas T. denitrificans lacks SoxCD. In both the organisms, SoxYZ complex formation is essential for thiosulfate oxidation. This SoxYZ protein complex interacts with SoxCD and SoxAX, respectively, for recycling the thiosulfate-bound SoxY protein. For this purpose, individual proteins were modeled via manifold modeling techniques. Protein-protein docking studies were executed to generate duo- and quadro-protein complexes. Different stability parameters such as free energy of folding, solvent accessibility area (for final complexes), and electrostatic surface potential (for SoxYZ complexes) were calculated and analyzed. Fifteen strengthening ionic interactions were accomplished in the SoxYZAX complex, whereas eight such interactions were observed in SoxYZCD complex. From the result, SoxYZAX complex was found to be more stable and interactive one. This study is the first of its kind that analyzes the comparative aspects of the binding interactions of the proteins involved in redox reactions of sulfur anions. This study may, therefore, be helpful in tailoring the microorganisms to function in a better way to remove the environmental sulfur pollutants.
authors.affiliation: Department of Biochemistry and Biophysics, University of Kalyani, Kalyani, Nadia, West Bengal, 741245, India.
authors.forename: Sujay
authors.initials: S
authors.lastname: Ray
authors.affiliation: Department of Biochemistry and Biophysics, University of Kalyani, Kalyani, Nadia, West Bengal, 741245, India. angshumanb@gmail.com.
authors.forename: Angshuman
authors.initials: A
authors.lastname: Bagchi
mesh_terms: D001426:Bacterial Proteins / Q000737:chemistry / Q000378:metabolism*; D020562:Betaproteobacteria / Q000378:metabolism*; D062105:Molecular Docking Simulation; D010084:Oxidation-Reduction; D011485:Protein Binding; D013455:Sulfur / Q000378:metabolism*
chemical_list: D001426:Bacterial Proteins; D013455:Sulfur
keywords: Biostatistics; Docking simulations; Redox reaction; Sox operon; Stability parameters; β-Proteobacteria