Construction of Fusion Protein with Carbohydrate-Binding Module and Leaf-Branch Compost Cutinase to Enhance the Degradation Efficiency of Polyethylene Terephthalate

Article Biotechnology & Applied Microbiology

Structure-function analysis of two closely related cutinases from Thermobifida cellulosilytica

Jenny Arnling Baath et al.

Summary: This study rigorously characterized two almost identical cutinases and demonstrated that even minor sequence differences in cutinases can drastically affect their substrate binding, substrate specificity, and catalytic efficiency.

BIOTECHNOLOGY AND BIOENGINEERING (2022)

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Article Biochemistry & Molecular Biology

Improving the Thermostability of a Fungal GH11 Xylanase via Fusion of a Submodule (C2) from Hyperthermophilic CBM9_1-2

Huabiao Miao et al.

Summary: This study investigated the effect of inserting the C2 submodule from hyperthermophilic CBM9_1-2 on the thermostability of xylanase CDBFV. The results showed that the insertion of the C2 submodule significantly enhanced the thermostability of CDBFV, resulting in longer half-lives at the optimal temperature.

INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES (2022)

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Article Biochemistry & Molecular Biology

The carbohydrate-active enzyme database: functions and literature

Elodie Drula et al.

Summary: The CAZy database, freely available for browsing and download, is deeply rooted in human curation and plays a crucial role in maintaining and updating family classification, classifying new sequences, and presenting functional information. Over the past 8 years, there has been an increase in novel families and extensive annotations conducted, highlighting the significant amount of work involved in analyzing and reporting biochemical data from the literature.

NUCLEIC ACIDS RESEARCH (2022)

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Article Biotechnology & Applied Microbiology

Enhancement of PET biodegradation by anchor peptide-cutinase fusion protein

Zhanzhi Liu et al.

Summary: The problem of PET waste has become a serious threat to the ecosystem. PET enzymatic biodegradation, using cutinase with fused PET binding domains, demonstrates a promising strategy to enhance PET degradation activity.

ENZYME AND MICROBIAL TECHNOLOGY (2022)

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Article Integrative & Complementary Medicine

Identifying Active Substances and the Pharmacological Mechanism of Houttuynia cordata Thunb. in Treating Radiation-Induced Lung Injury Based on Network Pharmacology and Molecular Docking Verification

Gui-Hua Lai et al.

Summary: The main active components of Houttuynia cordata Thunb. have the potential to treat radiation-induced lung injury (RILI) through cancer pathways, TNF signaling pathway, and PI3K-Akt signaling pathway.

EVIDENCE-BASED COMPLEMENTARY AND ALTERNATIVE MEDICINE (2022)

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Article Multidisciplinary Sciences

Machine learning-aided engineering of hydrolases for PET depolymerization

Hongyuan Lu et al.

Summary: Plastic waste is an ecological challenge, and enzymatic degradation offers a potentially green and scalable route for plastic recycling. Engineered PETase shows superior activity in hydrolyzing postconsumer PET, and a closed-loop recycling process is demonstrated.

NATURE (2022)

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Article Chemistry, Physical

Mechanism-Based Design of Efficient PET Hydrolases

Ren Wei et al.

Summary: Polyethylene terephthalate (PET) is a widely used synthetic polyester in textile fibers and packaging materials, which contributes significantly to global solid waste and environmental plastic pollution. Enzymatic PET recycling and upcycling have emerged as potential solutions, but there are limitations such as unbalanced enzyme-substrate interactions, limited thermostability, low catalytic efficiency at high temperatures, and inhibition by degradation intermediates. Protein engineering has been successful in addressing these limitations and can be applied to other mass-produced polymer types for biotechnological waste disposal.

ACS CATALYSIS (2022)

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Article Multidisciplinary Sciences

Scaffolding protein functional sites using deep learning

Jue Wang et al.

Summary: This article presents a deep learning approach for scaffolding protein structures with functional sites without needing to specify their fold or secondary structure. The authors describe two methods: constrained hallucination, which optimizes sequences to include the desired functional site, and inpainting, which fills in additional sequence and structure to create a viable protein scaffold. These methods were successfully used in designing and validating various protein structures, such as immunogens, receptor traps, metalloproteins, enzymes, and protein-binding proteins.

SCIENCE (2022)

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Article Chemistry, Physical

Directed evolution of an efficient and thermostable PET depolymerase

Elizabeth L. Bell et al.

Summary: The recent discovery of IsPETase, a hydrolytic enzyme that can degrade polyethylene terephthalate (PET), has sparked interest in using biocatalytic approaches to recycle plastics. In this study, we describe an automated, high-throughput directed evolution platform for engineering polymer degrading enzymes. By applying catalytic activity under elevated temperatures, a thermostable IsPETase variant (HotPETase) was successfully engineered to operate at the industrial processing temperature of PET. This HotPETase enzyme showed improved efficiency in degrading PET compared to previously reported enzymes and could selectively breakdown the PET component of multi-materials.

NATURE CATALYSIS (2022)

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Review Biochemistry & Molecular Biology

An Overview into Polyethylene Terephthalate (PET) Hydrolases and Efforts in Tailoring Enzymes for Improved Plastic Degradation

Nurul Fatin Syamimi Khairul Anuar et al.

Summary: Plastic and microplastic pollution is a global threat to ecosystems, with an annual production reaching up to 400 tons. Soil ecosystems, including agricultural lands, act as sinks for microplastics, but the impacts may be more far-reaching. Current methods to reduce PET waste are costly and potentially produce toxic secondary pollutants, highlighting the need for better remediation methods. Enzymatic treatments offer a promising approach, as enzymes can function under near-ambient conditions without the use of chemicals. This review focuses on PET-degrading microbial hydrolases and their contribution towards alleviating environmental microplastics, highlighting information on PET's molecular and degradation mechanisms.

INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES (2022)

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Article Environmental Sciences

Enhanced biodegradation of waste poly(ethylene terephthalate) using a reinforced plastic degrading enzyme complex

Dong-Hyeok Hwang et al.

Summary: A novel PET degrading complex consisting of Ideonella sakaiensis PETase and Candida antarctica lipase B (CALB) was reported. This complex improves degradability, binding ability, and enzyme stability. The mechanism of reaction was confirmed by PET and BHET analysis. The final enzyme complex showed a significant increase in hydrolysis efficiency compared to single enzymes.

SCIENCE OF THE TOTAL ENVIRONMENT (2022)

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Article Chemistry, Physical

The role of binding modules in enzymatic poly(ethylene terephthalate) hydrolysis at high-solids loadings

Rosie Graham et al.

Summary: Enzymes with multi-domain architectures are often found in nature and have been shown to enhance the degradation ability of polymers like PET. However, this study suggests that accessory binding modules are not necessary for cost-effective enzymatic PET recycling in industrial applications.

CHEM CATALYSIS (2022)

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Review Environmental Sciences

Degradation of conventional plastic wastes in the environment: A review on current status of knowledge and future perspectives of disposal

Sameh Samir Ali et al.

Summary: The accumulation of plastic waste is recognized as a critical environmental challenge globally, prompting the search for alternative solutions such as biodegradation. However, limited knowledge exists on the mechanisms and efficiency of plastic biodegradation.

SCIENCE OF THE TOTAL ENVIRONMENT (2021)

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Article Chemistry, Physical

Computational Redesign of a PETase for Plastic Biodegradation under Ambient Condition by the GRAPE Strategy

Yinglu Cui et al.

Summary: This study successfully improved the robustness of PETase through a computational strategy, resulting in the redesign of a variant DuraPETase with significantly elevated melting temperature and enhanced degradation of PET films, as well as complete biodegradation of microplastics at mild temperatures. The design strategy presents opportunities for handling uncollectable PET waste and converting resulting monomers into high-value molecules.

ACS CATALYSIS (2021)

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Article Multidisciplinary Sciences

An absorbance method for analysis of enzymatic degradation kinetics of poly(ethylene terephthalate) films

En Ze Linda Zhong-Johnson et al.

Summary: Increased interest in PET-degrading enzymes has led to efforts to find mutants with improved catalytic activity and thermostability. A simple and fast method for determining relative enzyme kinetics was presented in this study, showing that mutations in the thermostable variant of PETase improved catalytic rates 5- to 7-fold. The results support the necessity of kinetic measurements to determine relationships between sequence and function for PET hydrolases like IsPETase.

SCIENTIFIC REPORTS (2021)

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Article Biochemistry & Molecular Biology

Structural and functional variation of chitin-binding domains of a lytic polysaccharide monooxygenase from Cellvibrio japonicus

Eva Madland et al.

Summary: The study investigates the structural and functional properties of multiple CBMs in CjLPMO10A from the soil bacterium Cellvibrio japonicus, revealing that CjCBM73 has a higher affinity for chitin compared to CjCBM5. The differences in substrate binding are attributed to distinctive arrangements of conserved aromatic amino acids in the two CBMs, with CjCBM73 potentially interacting with multiple chitin chains due to a wider binding surface.

JOURNAL OF BIOLOGICAL CHEMISTRY (2021)

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Article Chemistry, Physical

Manufacturing energy and greenhouse gas emissions associated with plastics consumption

Scott R. Nicholson et al.

Summary: Comparing the supply chain energy requirements and greenhouse gas emissions of bio-based and/or circular plastic production to incumbent manufacturing paradigms is essential for informing the development of future disruptive technologies in the synthetic polymer industry.

JOULE (2021)

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Article Biotechnology & Applied Microbiology

Fusion of Chitin-Binding Domain From Chitinolyticbacter meiyuanensis SYBC-H1 to the Leaf-Branch Compost Cutinase for Enhanced PET Hydrolysis

Rui Xue et al.

Summary: A new method has been developed to fuse a chitin-binding domain from Chitinolyticbacter meiyuanensis SYBC-H1 to a cutinase, improving its adsorption to PET substrates and enhancing degradation performance by up to 19.6% compared to the precursor enzyme. This approach shows promising potential in stimulating the enzymatic hydrolysis of PET by fusing a polymer-binding module to the enzyme.

FRONTIERS IN BIOENGINEERING AND BIOTECHNOLOGY (2021)

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Review Chemistry, Multidisciplinary

Biotechnology of Plastic Waste Degradation, Recycling, and Valorization: Current Advances and Future Perspectives

Zi-Hao Qin et al.

Summary: Biotechnology-based biodegradation of plastics offers promising potential in addressing environmental burdens and solving plastic waste issues, with recent advancements focusing on mechanisms and strategies for recycling and valorization.

CHEMSUSCHEM (2021)

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Article Biotechnology & Applied Microbiology

Enhancing PET hydrolytic enzyme activity by fusion of the cellulose-binding domain of cellobiohydrolase I from Trichoderma reesei

Longhai Dai et al.

Summary: The fusion of a cellulose-binding domain CBM onto IsPETaseEHA was found to significantly enhance the enzymatic hydrolysis of PET, particularly at higher temperatures. This strategy shows promise in stimulating the biodegradation of PET.

JOURNAL OF BIOTECHNOLOGY (2021)

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Article Engineering, Environmental

A marine bacterial community capable of degrading poly(ethylene terephthalate) and polyethylene

Rongrong Gao et al.

Summary: The study identified a marine bacterial community capable of efficiently degrading PET and PE, characterized and investigated using various techniques. Researchers successfully verified the effectiveness of using these bacterial communities for plastic degradation on PE films.

JOURNAL OF HAZARDOUS MATERIALS (2021)

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Article Multidisciplinary Sciences

Highly accurate protein structure prediction with AlphaFold

John Jumper et al.

Summary: Proteins are essential for life, and accurate prediction of their structures is a crucial research problem. Current experimental methods are time-consuming, highlighting the need for accurate computational approaches to address the gap in structural coverage. Despite recent progress, existing methods fall short of atomic accuracy in protein structure prediction.

NATURE (2021)

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Article Chemistry, Physical

Positive Charge Introduction on the Surface of Thermostabilized PET Hydrolase Facilitates PET Binding and Degradation

Akihiko Nakamura et al.

Summary: A thermostable enzyme PET2 was engineered for improved hydrolytic activity against polyethylene terephthalate (PET), with mutations in surface charge and formation of additional disulfide bond enhancing activity. The best mutant, PET2 7M, showed increased melting temperature and hydrolytic activity compared to wildtype PET2, with optimal temperature for hydrolysis being 8 degrees C higher and activity being 6.8 times higher at that temperature. These modifications led to enhanced binding rate and long-term thermal stability of PET2 7M at the optimal temperature.

ACS CATALYSIS (2021)

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Review Chemistry, Physical

Chemical and biological catalysis for plastics recycling and upcycling

Lucas D. Ellis et al.

Summary: Plastic pollution is causing an environmental crisis, driving the development of new recycling and upcycling methods. Both chemical and biological catalysis face challenges and opportunities, requiring innovative design to overcome limitations.

NATURE CATALYSIS (2021)

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Review Chemistry, Multidisciplinary

Enzymatic degradation of plant biomass and synthetic polymers

Chun-Chi Chen et al.

NATURE REVIEWS CHEMISTRY (2020)

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Article Multidisciplinary Sciences

An engineered PET depolymerase to break down and recycle plastic bottles

V. Tournier et al.

NATURE (2020)

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Editorial Material Chemistry, Physical

Possibilities and limitations of biotechnological plastic degradation and recycling

Ren Wei et al.

NATURE CATALYSIS (2020)

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Review Environmental Sciences

Recent advances in biocatalysts engineering for polyethylene terephthalate plastic waste green recycling

Nadia A. Samak et al.

ENVIRONMENT INTERNATIONAL (2020)

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Article Chemistry, Multidisciplinary

One-step processing of shrimp shell waste with a chitinase fused to a carbohydrate-binding module

Jun-Jin Deng et al.

GREEN CHEMISTRY (2020)

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Article Green & Sustainable Science & Technology

Material Recycling and the Myth of Landfill Diversion

Trevor Zink et al.

JOURNAL OF INDUSTRIAL ECOLOGY (2019)

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Article Environmental Sciences

Life cycle assessment of paper and plastic packaging waste in landfill, incineration, and gasification-pyrolysis

A. Demetrious et al.

JOURNAL OF MATERIAL CYCLES AND WASTE MANAGEMENT (2019)

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Article Chemistry, Physical

Rational Protein Engineering of Thermo-Stable PETase from Ideonella sakaiensis for Highly Efficient PET Degradation

Hyeoncheol Francis Son et al.

ACS CATALYSIS (2019)

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Article Biotechnology & Applied Microbiology

Interaction of carbohydrate-binding modules with poly(ethylene terephthalate)

Joanna Weber et al.

APPLIED MICROBIOLOGY AND BIOTECHNOLOGY (2019)

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Article Chemistry, Multidisciplinary

Biocatalytic Degradation Efficiency of Postconsumer Polyethylene Terephthalate Packaging Determined by Their Polymer Microstructures

Ren Wei et al.

ADVANCED SCIENCE (2019)

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Review Biotechnology & Applied Microbiology

Starch-binding domains as CBM families-history, occurrence, structure, function and evolution

Stefan Janecek et al.

BIOTECHNOLOGY ADVANCES (2019)

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Article Polymer Science

Addition of Graphite Filler to Enhance Electrical, Morphological, Thermal, and Mechanical Properties in Poly (Ethylene Terephthalate): Experimental Characterization and Material Modeling

Basheer A. Alshammari et al.

POLYMERS (2019)

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Article Multidisciplinary Sciences

Efficient Degradation of Poly(ethylene terephthalate) with Thermobifida fusca Cutinase Exhibiting Improved Catalytic Activity Generated using Mutagenesis and Additive-based Approaches

Makoto Furukawa et al.

SCIENTIFIC REPORTS (2019)

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Article Biochemistry & Molecular Biology

Stabilizing Leaf and Branch Compost Cutinase (LCC) with Glycosylation: Mechanism and Effect on PET Hydrolysis

Abhijit N. Shirke et al.

BIOCHEMISTRY (2018)

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Article Multidisciplinary Sciences

Enhanced features of Dictyoglomus turgidum Cellulase A engineered with carbohydrate binding module 11 from Clostridium thermocellum

Chiara Cattaneo et al.

SCIENTIFIC REPORTS (2018)

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Article Biotechnology & Applied Microbiology

New Insights into the Function and Global Distribution of Polyethylene Terephthalate (PET)-Degrading Bacteria and Enzymes in Marine and Terrestrial Metagenomes

Dominik Danso et al.

APPLIED AND ENVIRONMENTAL MICROBIOLOGY (2018)

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Article Engineering, Environmental

Ingested Micronizing Plastic Particle Compositions and Size Distributions within Stranded Post-Hatchling Sea Turtles

Evan M. White et al.

ENVIRONMENTAL SCIENCE & TECHNOLOGY (2018)

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The Phylogenomic Diversity of Herbivore-Associated Fibrobacter spp. Is Correlated to Lignocellulose-Degrading Potential

Anthony P. Neumann et al.

MSPHERE (2018)

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Article Biochemistry & Molecular Biology

Lipase from Candida antarctica (CALB) and cutinase from Humicola insolens act synergistically for PET hydrolysis to terephthalic acid

Adriano Carniel et al.

PROCESS BIOCHEMISTRY (2017)

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Article Engineering, Environmental

Mechanical and chemical recycling of solid plastic waste

Kim Ragaert et al.

WASTE MANAGEMENT (2017)

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Production, use, and fate of all plastics ever made

Roland Geyer et al.

SCIENCE ADVANCES (2017)

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Article Multidisciplinary Sciences

A bacterium that degrades and assimilates poly(ethylene terephthalate)

Shosuke Yoshida et al.

SCIENCE (2016)

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ff14SB: Improving the Accuracy of Protein Side Chain and Backbone Parameters from ff99SB

James A. Maier et al.

JOURNAL OF CHEMICAL THEORY AND COMPUTATION (2015)

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Engineering chimeric thermostable GH7 cellobiohydrolases in Saccharomyces cerevisiae

Sanni P. Voutilainen et al.

APPLIED MICROBIOLOGY AND BIOTECHNOLOGY (2014)

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Recombinant production and characterization of full-length and truncated β-1,3-glucanase PglA from Paenibacillus sp S09

Rui Cheng et al.

BMC BIOTECHNOLOGY (2013)

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Review Polymer Science

Plastic Degradation and Its Environmental Implications with Special Reference to Poly(ethylene terephthalate)

Hayden K. Webb et al.

POLYMERS (2013)

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Isolation of a Novel Cutinase Homolog with Polyethylene Terephthalate-Degrading Activity from Leaf-Branch Compost by Using a Metagenomic Approach

Sintawee Sulaiman et al.

APPLIED AND ENVIRONMENTAL MICROBIOLOGY (2012)

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Enzymatic Surface Hydrolysis of PET: Effect of Structural Diversity on Kinetic Properties of Cutinases from Thermobifida

Enrique Herrero Acero et al.

MACROMOLECULES (2011)

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An improved generalized AMBER force field (GAFF) for urea

Guel Altinbas Ozpinar et al.

JOURNAL OF MOLECULAR MODELING (2010)

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Cutinase-Catalyzed Hydrolysis of Poly(ethylene terephthalate)

Asa M. Ronkvist et al.

MACROMOLECULES (2009)

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Carbohydrate-binding modules: fine-tuning polysaccharide recognition

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BIOCHEMICAL JOURNAL (2004)

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A novel pathway to enzyme deactivation: The cutinase model

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Characterization of cyclodextrin glycosyltransferase from Bacillus firmus strain no. 37

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APPLIED BIOCHEMISTRY AND BIOTECHNOLOGY (2001)

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Construction of Fusion Protein with Carbohydrate-Binding Module and Leaf-Branch Compost Cutinase to Enhance the Degradation Efficiency of Polyethylene Terephthalate

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