Interactions between DC-SIGN and the envelope protein from Dengue and Zika viruses: a structural perspective based on molecular dynamics and MM/GBSA analyses

• Published in: Virology journal 2023-12, Vol.20 (1), p.286-286, Article 286
• Main Authors: Menechino, Bruno Stein Barbosa, Kato, Rodrigo Bentes, Franz, Helena Cristina Ferreira, da Silva, Pedro Eduardo Almeida, Corat, Marcus, de Lima Neto, Daniel Ferreira
• Format: Article
• Language: English
• Subjects: Algorithms; Analysis; arboviruses; Blood; Brief Report; carbohydrates; Cell receptors; Chemical properties; Crystallography; Cytokines; DC-SIGN; DC-SIGN protein; Dendritic cells; Dengue; Dengue fever; Dengue Virus; Dengue viruses; Energy; Env protein; Equilibrium; Health aspects; Humans; Hydrogen bonds; Infection; insect vectors; Leukocytes; MM/GBSA; Molecular dynamics; Molecular Dynamics Simulation; Pathogenesis; Phylogeny; Physiological aspects; Protein-protein interactions; Proteins; Surface area; Vector-borne diseases; Viral envelope proteins; Viruses; Zika; Zika Virus; Zika Virus Infection
• ISSN: 1743-422X; 1743-422X
• DOI: 10.1186/s12985-023-02251-4

Zika virus (ZIKV) and dengue virus (DENV) share a lot of similarities being both phylogenetically closely related, share the same insect vector passage for reaching the host, affinity for the same carbohydrate receptor domains (CRDs), indicating feasible competition between them on the natural field. Here, we prospected interactions of both envelope proteins with a DC-SIGN, a transmembrane c-type lectine receptor with the most implicated CRD with the Flavivirus infection presents on dendritic cells involved in viruses replication processes into the host, and among rares CRD receptors susceptible to interacting with a broad of subtypes of DENV. Protein-protein docking procedures produced structures for molecular dynamics experiments, suggesting the most energetically favorable complex. The difference found in the deltaG results prompted the experimentation with molecular dynamics. To investigate further specific residues involved with such interactions we produced a decomposition analysis using molecular dynamics of the docked proteins evaluated afterward with the Generalized Born Surface Area method. Solvent-accessible surface area (SASA) analysis for both showed very similar but with a slight reduction for ZIKV_E, which agreed with residues SASA analysis highlighting regions more exposed in the ZIVK protein than in DENV. Despite residues PHE313 is reponsible for most of the interactions with the envelope of these arboviruses, ZIKV interacted with this residue in DC-SIGN with lower energies and using more interactions with not expexted residues GLU241 and ARG386. Taken together these results suggest better competitive interaction of ZIKV with the DC-SIGN receptor, particularly in the CRD portion.