In silico binding affinity analysis of microplastic compounds on PET hydrolase enzyme target of Ideonella sakaiensis

Duru, Chidi Edbert; Duru, Ijeoma Akunna; Enyoh, Christian Ebere

doi:10.1186/s42269-021-00563-5

Cited by 19 publications

(9 citation statements)

References 42 publications

(47 reference statements)

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“…For example, the bacterium Ideonella sakaiensis has been shown to be able to degrade polyethylene into smaller, less harmful components. 38 Another approach involves using bacteria to generate biofilms on the surface of microplastics, which can help to reduce their negative impacts. Biofilms are communities of microorganisms that adhere to surfaces and produce a sticky, protective matrix.…”

Section: Discussionmentioning

confidence: 99%

“…An important area that can be considered in future research on the effect of MPs for biohydrogen production is the presence or use of microorganisms that target the microplastics. For example, the bacterium Ideonella sakaiensis has been shown to be able to degrade polyethylene into smaller, less harmful components . Another approach involves using bacteria to generate biofilms on the surface of microplastics, which can help to reduce their negative impacts.…”

Section: Discussionmentioning

confidence: 99%

See 1 more Smart Citation

Effect of Microplastics Pollution on Hydrogen Production from Biomass: A Comprehensive Review

Kaykhaii

Honarmandrad

Gębicki

2023

Ind. Eng. Chem. Res.

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Hydrogen production from biomass and organic wastes is considered as a potential alternative energy source and is known as a clean and CO2-free fuel energy carrier. H2 is considered very promising among the other energy sources; therefore, the effective conversion of biomass and organic solid waste to this secondary energy source is urgently sought. As a result, it is of importance to assess the impact of the existence of microplastics (MPs) pollution in biomass during its fermentation. It was found that, besides the number of plastic particles present in biomass, the size of them plays the most important role in the yield of hydrogen. While plastics in nanoparticle sizes always suppress the production of H2, depending on their concentration, MPs may increase or reduce it. For example, the presence of 60 particles/L of micrometer-sized polyethylene terephthalate reduces hydrogen production by 30%, while 200 particles of it yields 63.6% more hydrogen. This Review examines all available literature on the effects of the presence of various MPs on biohydrogen production.

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Section: Discussionmentioning

confidence: 99%

Section: Discussionmentioning

confidence: 99%

Effect of Microplastics Pollution on Hydrogen Production from Biomass: A Comprehensive Review

Kaykhaii

Honarmandrad

Gębicki

2023

Ind. Eng. Chem. Res.

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“…The multiple ligand docking of the main compounds in todomatsu oil on the Der f 2 was done with AutoDock Vina in PyRx software version 0.8 (San Diego, CA, USA) [ 40 , 52 , 53 ]. In brief, the compounds were docked blindly at the Der f 2 cavities to allow the ligands unrestricted access to engaging with sites with the lowest energy.…”

Section: Methodsmentioning

confidence: 99%

Novel Approaches for Inhibiting the Indoor Allergen Der f 2 Excreted from House Dust Mites by Todomatsu Oil Produced from Woodland Residues

Lin

Enyoh

Wang

et al. 2022

IJERPH

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House dust mite (HDM) is a globally ubiquitous domestic cause of allergic diseases. There is a pressing demand to discover efficient, harmless, and eco-friendly natural extracts to inhibit HDM allergens that are more likely to trigger allergies and challenging to be prevented entirely. This study, therefore, is aimed at assessing the inhibition of the allergenicity of major HDM allergen Der f 2 by todomatsu oil extracted from residues of Abies Sachalinensis. The inhibition was investigated experimentally (using enzyme-linked immunosorbent assay (ELISA), surface plasmon resonance (SPR), and sodium dodecyl sulfate-polyacrylamide gel electrophoresis (SDS-PAGE)) and in silico using molecular docking. The results showed that todomatsu oil inhibits the allergenicity of Der f 2 by reducing its amount instead of the IgG binding capacity of a single protein. Moreover, the compounds in todomatsu oil bind to Der f 2 via alkyl hydrophobic interactions. Notably, most compounds interact with the hydrophobic amino acids of Der f 2, and seven substances interact with CYS27. Contrarily, the principal compounds fail to attach to the amino acids forming the IgG epitope in Der f 2. Interestingly, chemical components with the lowest relative percentages in todomatsu oil show high-affinity values on Der f 2, especially β-maaliene (−8.0 kcal/mol). In conclusion, todomatsu oil has been proven in vitro as a potential effective public health strategy to inhibit the allergenicity of Der f 2.

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“…The decreasing order of binding energy is as: polycarbonate > PET > polyamide > poly(methyl methacrylate) > polyurethane > polyvinyl chloride. High binding energy indicates higher energetic efficiency on hydrolysis by the enzyme 34 .…”

Section: A Viable Bio-alternative To the Plastic Pollution Menacementioning

confidence: 99%

Recent Advancements and Mechanism of Plastics Biodegradation Promoted by Bacteria: A Key for Sustainable Remediation for Plastic Wastes

Kaur

Sharma

Shree

et al. 2023

Biosci., Biotech. Res. Asia

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Plastic has become an indispensable part of our lives and cutting down plastic consumption entirely is difficult to achieve. The recalcitrant and non-biodegradable nature of plastic leads to accumulation of tons of plastic in landfills and water bodies which further risks marine life and human life too causing serious health issues. In recent years, several microbial enzymes have been discovered that have the ability to degrade plastic. The present review highlights the recent discovery and properties of the plastic-eating bacteria, Ideonella sakaiensis, that has potential to be used for plastic degradation and recycling. The bacteria possess unique enzymes that allow it to utilise Polyethylene terephthalate (PET) plastic, thereby degrading it to relatively safer monomeric forms that can be further degraded and purified to manufacture recycled plastics. The review focuses on the mechanism of PET hydrolysis, recent advances in the field to escalate enzymatic efficiency and development of new bacterial and enzymatic strains through genetic engineering which can enhance its catalytic competence and make the process time and cost-effective. The plastic metabolising bacteria can thus be a potential and efficient bio-alternative to degrade plastic in a biological and sustainable manner thereby helping scale the otherwise insurmountable plastic pollution crisis.

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In silico binding affinity analysis of microplastic compounds on PET hydrolase enzyme target of Ideonella sakaiensis

Cited by 19 publications

References 42 publications

Effect of Microplastics Pollution on Hydrogen Production from Biomass: A Comprehensive Review

Effect of Microplastics Pollution on Hydrogen Production from Biomass: A Comprehensive Review

Novel Approaches for Inhibiting the Indoor Allergen Der f 2 Excreted from House Dust Mites by Todomatsu Oil Produced from Woodland Residues

Recent Advancements and Mechanism of Plastics Biodegradation Promoted by Bacteria: A Key for Sustainable Remediation for Plastic Wastes

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