Molecular dynamics simulations identify the topological weak spots of a protease CN2S8A
Published 2023 View Full Article
- Home
- Publications
- Publication Search
- Publication Details
Title
Molecular dynamics simulations identify the topological weak spots of a protease CN2S8A
Authors
Keywords
-
Journal
JOURNAL OF MOLECULAR GRAPHICS & MODELLING
Volume 124, Issue -, Pages 108571
Publisher
Elsevier BV
Online
2023-07-20
DOI
10.1016/j.jmgm.2023.108571
References
Ask authors/readers for more resources
Related references
Note: Only part of the references are listed.- Using High-Throughput Molecular Dynamics Simulation to Enhance the Computational Design of Kemp Elimination Enzymes
- (2023) Pengyu Wang et al. Journal of Chemical Information and Modeling
- Versatility of subtilisin: A review on structure, characteristics, and applications
- (2022) Nur Aliyah Mohd Azrin et al. BIOTECHNOLOGY AND APPLIED BIOCHEMISTRY
- Significant Improvement of Both Catalytic Efficiency and Stability of Fructosyltransferase from Aspergillus niger by Structure-Guided Engineering of Key Residues in the Conserved Sequence of the Catalytic Domain
- (2022) Yuanyuan Xia et al. JOURNAL OF AGRICULTURAL AND FOOD CHEMISTRY
- A highly efficient protein degradation system in Bacillus sp. CN2: a functional-degradomics study
- (2021) Yuhong Lai et al. APPLIED MICROBIOLOGY AND BIOTECHNOLOGY
- Enzyme engineering and its industrial applications
- (2021) Isabela Victorino da Silva Amatto et al. BIOTECHNOLOGY AND APPLIED BIOCHEMISTRY
- Comparative molecular dynamics simulations identify a salt-sensitive loop responsible for the halotolerant activity of GH5 cellulases
- (2021) Yuxuan Song et al. JOURNAL OF BIOMOLECULAR STRUCTURE & DYNAMICS
- Highly accurate protein structure prediction with AlphaFold
- (2021) John Jumper et al. NATURE
- Accurate prediction of protein structures and interactions using a three-track neural network
- (2021) Minkyung Baek et al. SCIENCE
- A combination of bioinformatics analysis and rational design strategies to enhance keratinase thermostability for efficient biodegradation of feathers
- (2021) Chang Su et al. SCIENCE OF THE TOTAL ENVIRONMENT
- Enzyme engineering: Reshaping the biocatalytic functions
- (2020) Misha Ali et al. BIOTECHNOLOGY AND BIOENGINEERING
- Enhancing the thermostability of Rhizopus chinensis lipase by rational design and MD simulations
- (2020) Rui Wang et al. INTERNATIONAL JOURNAL OF BIOLOGICAL MACROMOLECULES
- PTGL: extension to graph-based topologies of cryo-EM data for large protein structures
- (2020) Jan Niclas Wolf et al. BIOINFORMATICS
- Recent advancements in the synthesis of novel thermostable biocatalysts and their applications in commercially important chemoenzymatic conversion processes
- (2020) Aravind Suresh et al. BIORESOURCE TECHNOLOGY
- Thermophilic enzyme systems for efficient conversion of lignocellulose to valuable products: structural insights and future perspectives for esterases and oxidative catalysts
- (2019) Anthi Karnaouri et al. BIORESOURCE TECHNOLOGY
- Improvements of thermophilic enzymes: from genetic modifications to applications
- (2019) Huawen Han et al. BIORESOURCE TECHNOLOGY
- Genetically modified food enzymes: A review
- (2019) Yi Zhang et al. Current Opinion in Food Science
- Utility of B-Factors in Protein Science: Interpreting Rigidity, Flexibility, and Internal Motion and Engineering Thermostability
- (2019) Zhoutong Sun et al. CHEMICAL REVIEWS
- Thermophiles and the applications of their enzymes as new biocatalysts
- (2019) Joaquín Atalah et al. BIORESOURCE TECHNOLOGY
- Molecular Graphics: Bridging Structural Biologists and Computer Scientists
- (2019) Xavier Martinez et al. STRUCTURE
- Recent advances in the improvement of enzyme thermostability by structure modification
- (2019) Zhe Xu et al. CRITICAL REVIEWS IN BIOTECHNOLOGY
- Increasing Enzyme Stability and Activity through Hydrogen Bond-Enhanced Halogen Bonds
- (2018) Anna-Carin C. Carlsson et al. BIOCHEMISTRY
- Molecular dynamics simulation for rational protein engineering: Present and future prospectus
- (2018) Maryam Rouhani et al. JOURNAL OF MOLECULAR GRAPHICS & MODELLING
- SWISS-MODEL: homology modelling of protein structures and complexes
- (2018) Andrew Waterhouse et al. NUCLEIC ACIDS RESEARCH
- FoldX as Protein Engineering Tool: Better Than Random Based Approaches?
- (2018) Oliver Buß et al. Computational and Structural Biotechnology Journal
- The state-of-the-art strategies of protein engineering for enzyme stabilization
- (2018) Qian Liu et al. BIOTECHNOLOGY ADVANCES
- Dynamic Perturbation of the Active Site Determines Reversible Thermal Inactivation in Glycoside Hydrolase Family 12
- (2017) Xukai Jiang et al. Journal of Chemical Information and Modeling
- Thermal stability and unfolding pathways of hyperthermophilic and mesophilic periplasmic binding proteins studied by molecular dynamics simulation
- (2016) Lin Chen et al. JOURNAL OF BIOMOLECULAR STRUCTURE & DYNAMICS
- Contribution of main chain and side chain atoms and their locations to the stability of thermophilic proteins
- (2016) Dharma Rao Tompa et al. JOURNAL OF MOLECULAR GRAPHICS & MODELLING
- Signatures of protein thermal denaturation and local hydrophobicity in domain specific hydration behavior: a comparative molecular dynamics study
- (2016) Prathit Chatterjee et al. Molecular BioSystems
- Structural and dynamic evolution of the amphipathic N-terminus diversifies enzyme thermostability in the glycoside hydrolase family 12
- (2016) Xukai Jiang et al. PHYSICAL CHEMISTRY CHEMICAL PHYSICS
- The new protein topology graph library web server
- (2015) Tim Schäfer et al. BIOINFORMATICS
- Protein engineering and its applications in food industry
- (2015) Swati Kapoor et al. CRITICAL REVIEWS IN FOOD SCIENCE AND NUTRITION
- Structure Based Thermostability Prediction Models for Protein Single Point Mutations with Machine Learning Tools
- (2015) Lei Jia et al. PLoS One
- Enhanced heat stability and kinetic parameters of maize endosperm ADPglucose pyrophosphorylase by alteration of phylogenetically identified amino acids
- (2014) Susan K. Boehlein et al. ARCHIVES OF BIOCHEMISTRY AND BIOPHYSICS
- Computational approach for designing thermostable Candida antarctica lipase B by molecular dynamics simulation
- (2014) Hyun June Park et al. JOURNAL OF BIOTECHNOLOGY
- The non-uniform early structural response of globular proteins to cold denaturing conditions: A case study with Yfh1
- (2014) Prathit Chatterjee et al. JOURNAL OF CHEMICAL PHYSICS
- Formation of the High-Affinity Calcium Binding Site in Pro-subtilisin E with the Insertion Sequence IS1 of Pro-Tk-subtilisin
- (2013) Ryo Uehara et al. BIOCHEMISTRY
- A single mutation within a Ca2+ binding loop increases proteolytic activity, thermal stability, and surfactant stability
- (2013) Mitsuyoshi Okuda et al. BIOCHIMICA ET BIOPHYSICA ACTA-PROTEINS AND PROTEOMICS
- mCSM: predicting the effects of mutations in proteins using graph-based signatures
- (2013) Douglas E. V. Pires et al. BIOINFORMATICS
- Commercial proteases: Present and future
- (2013) Qing Li et al. FEBS LETTERS
- Optimization of the Additive CHARMM All-Atom Protein Force Field Targeting Improved Sampling of the Backbone ϕ, ψ and Side-Chain χ1 and χ2 Dihedral Angles
- (2012) Robert B. Best et al. Journal of Chemical Theory and Computation
- Key stabilizing elements of protein structure identified through pressure and temperature perturbation of its hydrogen bond network
- (2012) Lydia Nisius et al. Nature Chemistry
- The overexpression of the SAPB of Bacillus pumilus CBS and mutated sapB-L31I/T33S/N99Y alkaline proteases in Bacillus subtilis DB430: New attractive properties for the mutant enzyme
- (2011) Nadia Zaraî Jaouadi et al. BIORESOURCE TECHNOLOGY
- Optimization of parameters for molecular dynamics simulation using smooth particle-mesh Ewald in GROMACS 4.5
- (2011) Mark J. Abraham et al. JOURNAL OF COMPUTATIONAL CHEMISTRY
- Performance of protein stability predictors
- (2010) Sofia Khan et al. HUMAN MUTATION
- Thermostabilization of an esterase by alignment-guided focussed directed evolution
- (2010) Helge Jochens et al. PROTEIN ENGINEERING DESIGN & SELECTION
- An insight into the thermostability of a pair of xylanases: the role of hydrogen bonds
- (2009) Davi Serradella Vieira et al. MOLECULAR PHYSICS
- Assessing computational methods for predicting protein stability upon mutation: good on average but not in the details
- (2009) V. Potapov et al. PROTEIN ENGINEERING DESIGN & SELECTION
- CHARMM-GUI: A web-based graphical user interface for CHARMM
- (2008) Sunhwan Jo et al. JOURNAL OF COMPUTATIONAL CHEMISTRY
- Robust prediction of mutation-induced protein stability change by property encoding of amino acids
- (2008) S. Kang et al. PROTEIN ENGINEERING DESIGN & SELECTION
Find Funding. Review Successful Grants.
Explore over 25,000 new funding opportunities and over 6,000,000 successful grants.
ExploreBecome a Peeref-certified reviewer
The Peeref Institute provides free reviewer training that teaches the core competencies of the academic peer review process.
Get Started