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Recent progress in the synthesis of advanced biofuel and bioproducts
BF Pfleger, R Takors - Current Opinion in Biotechnology, 2023 - Elsevier
Highlights●Why biofuels and bioproducts remain critical to society●What molecular
products can be made by biotechnology using available feedstocks●How new systems and …
products can be made by biotechnology using available feedstocks●How new systems and …
Insertions and deletions (indels): a missing piece of the protein engineering jigsaw
Over the years, protein engineers have studied nature and borrowed its tricks to accelerate
protein evolution in the test tube. While there have been considerable advances, our ability …
protein evolution in the test tube. While there have been considerable advances, our ability …
Learning epistasis and residue coevolution patterns: Current trends and future perspectives for advancing enzyme engineering
Engineering proteins and enzymes with the desired functionality has broad applications in
molecular biology, biotechnology, biomedical sciences, health, and medicine. The vastness …
molecular biology, biotechnology, biomedical sciences, health, and medicine. The vastness …
Computational biophysical characterization of the SARS-CoV-2 spike protein binding with the ACE2 receptor and implications for infectivity
SARS-CoV-2 is a novel highly virulent pathogen which gains entry to human cells by
binding with the cell surface receptor–angiotensin converting enzyme (ACE2). We …
binding with the cell surface receptor–angiotensin converting enzyme (ACE2). We …
Towards an optimal monoclonal antibody with higher binding affinity to the receptor-binding domain of SARS-CoV-2 spike proteins from different variants
A highly efficient and robust multiple scales in silico protocol, consisting of atomistic
Molecular Dynamics (MD), coarse-grain (CG) MD, and constant-pH CG Monte Carlo (MC) …
Molecular Dynamics (MD), coarse-grain (CG) MD, and constant-pH CG Monte Carlo (MC) …
Computational approaches for enteric methane mitigation research: from fermi calculations to artificial intelligence paradigms
Background Governments worldwide have made various commitments to address climate
change. The first international treaty related to climate change was the Kyoto Protocol of the …
change. The first international treaty related to climate change was the Kyoto Protocol of the …
Compendious survey of protein tandem repeats in inbred mouse strains
A Arslan - BMC Genomic Data, 2022 - Springer
Short tandem repeats (STRs) play a crucial role in genetic diseases. However, classic
disease models such as inbred mice lack such genome wide data in public domain. The …
disease models such as inbred mice lack such genome wide data in public domain. The …
Engineering sensitivity and specificity of AraC-based biosensors responsive to triacetic acid lactone and orsellinic acid
We previously described the design of triacetic acid lactone (TAL) biosensor 'AraC-TAL1',
based on the AraC regulatory protein. Although useful as a tool to screen for enhanced TAL …
based on the AraC regulatory protein. Although useful as a tool to screen for enhanced TAL …
[HTML][HTML] Enzyme structure correlates with variant effect predictability
F van der Flier, D Estell, S Pricelius… - Computational and …, 2024 - Elsevier
Protein engineering increasingly relies on machine learning models to computationally pre-
screen promising novel candidates. Although machine learning approaches have proven …
screen promising novel candidates. Although machine learning approaches have proven …
Improved Functional Classification of Hydrolases through Pairwise Structural Similarity of Reaction Cores
We report a systematic pipeline is for extracting the catalytically relevant reactive site in
addition to the surrounding allosterically linked residue shells around the reaction site of the …
addition to the surrounding allosterically linked residue shells around the reaction site of the …