title: Molecular Interactions, Structural Transitions and Alterations in SoxB Protein Due to SoxYZ Interaction from Two Distinct β-Proteobacteria: An In silico Approach Towards the Thiosulfate Oxidation and Recycling of SoxY Protein.
abstract: Microbial oxidation-reduction reactions utilizing the environmental thiosulfate ions and mediated mainly by the sox operon are very much essential to maintain the sulfur balance in the environment. Majority of the previously documented wet laboratory studies show genetics behind the functionality of Sox proteins encoded by the sox operon. However, the molecular details of the involvements of the essential SoxB, SoxY and SoxZ proteins in the beta-proteobacteria have not yet been elucidated. In this work, an attempt was made to analyze the interaction profiles of the aforementioned SoxB, SoxY and SoxZ proteins to predict their roles in biological sulfur oxidation process. In order to establish the possible roles of these Sox proteins, we built the homology models of these proteins from the two different beta-proteobacteria Dechloromonas aromatica and Thiobacillus denitrificans. We then used molecular docking and simulation studies to further analyze the interaction profiles of these sox proteins. Our analyses revealed that SoxB protein from T. denitrificans exhibited steadier and stronger interactions with SoxYZ protein complex. On the other hand, SoxB protein from D. aromatica was found to exhibit a spontaneous interaction with greater ΔG values and therefore was well documented to exhibit a dual role. This is the first research article to discern the molecular level of interaction profiles of SoxB with SoxYZ protein complex in the beta-proteobacteria D. aromatica and T. denitrificans during the oxidations of thiosulfate. It would further prompt the future investigation into the mutational impact on the sequential interaction pattern in sox operon.
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.
authors.forename: Semanti
authors.initials: S
authors.lastname: Ghosh
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*; D003198:Computer Simulation; D008958:Models, Molecular; D010084:Oxidation-Reduction; D011485:Protein Binding; D055672:Static Electricity; D040681:Structural Homology, Protein; D013816:Thermodynamics; D013885:Thiosulfates / Q000378:metabolism*
chemical_list: D001426:Bacterial Proteins; D013885:Thiosulfates
keywords: Biostatistics; Docking simulations; Microbial sulfur oxidation; Sox operon; Stability parameters; β-Proteobacteria