Articles tagged with Protein Structure
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Comprehensive examination of tools, techniques, methodologies, and approaches used across scientific disciplines to conduct research, collect data, and analyze results. Encompasses experimental procedures, analytical methods, measurement techniques, instrumentation, imaging technologies, spectroscopic methods, laboratory protocols, observational studies, statistical analysis, computational methods, data visualization, quality control, and methodological innovations. Addresses the practical techniques and theoretical frameworks enabling scientists to investigate phenomena, test hypotheses, gather evidence, ensure reproducibility, and generate reliable knowledge through systematic, rigorous investigation across all areas of scientific inquiry.
Study of abstract structures, patterns, quantities, relationships, and logical reasoning through pure and applied mathematical disciplines. Encompasses algebra, calculus, geometry, topology, number theory, analysis, discrete mathematics, mathematical logic, set theory, probability, statistics, and computational mathematics. Investigates mathematical structures, theorems, proofs, algorithms, functions, equations, and the rigorous logical frameworks underlying quantitative reasoning. Provides the foundational language and tools for all scientific fields, enabling precise description of natural phenomena, modeling of complex systems, and the development of technologies across physics, engineering, computer science, economics, and all quantitative sciences.
Scientists at Nagoya University developed a new gastric acid inhibitor with a binding affinity nearly 10 times higher than existing drugs. The AI-driven approach led to the creation of compound DQ-18, which exhibits stronger binding to the gastric proton pump.
Researchers used molecular dynamics simulations to study how urea and alcohol induce structural changes in proteins, with a focus on stabilizing helices and coils. The team identified preferential binding parameters for both cosolvents, demonstrating opposing effects that can be predicted using computational methods.
Researchers developed a novel physical theory that can accurately predict protein folding, surpassing existing models like AlphaFold 2. The new model, WSME-L, can elucidate folding processes without limitations, enabling a comprehensive understanding of protein structures and behaviors.
Scientists have discovered two 'switch' regions in the structure of the K-Ras protein that are affected by dangerous mutations. These regions, located near a protein loop, can amplify cell division and lead to cancer. Researchers say their findings provide new insights into the mechanisms of these mutations and potential drug targets.
Researchers have discovered a novel enzyme family related to bacterial pathogenicity in Gram-negative bacteria. The study revealed that enzymes involved in OPG synthesis and regulation play crucial roles in bacterial infection capability.
Scientists have discovered the open and closed states of the coronavirus E ion channel, which could help develop antiviral drugs to reduce inflammation. The study's findings provide insights into the channel's structure and function, allowing researchers to design molecules that can bind to it and prevent inflammation.
Researchers develop natural-based, low-carbon building materials by mimicking the composite adhesive secreted by sandcastle worms, which binds grains together. These materials exhibit good mechanical performance and can be constructed from various grains using oppositely charged bio-polymer adhesives.
Researchers identified two SARS-CoV-2 protein mutations linked to severe COVID-19 symptoms and increased inflammation. The mutations, known as KR, were found in patients with higher viral loads and more severe symptoms.
Rice University scientists developed a tiny CRISPR-Cas13 system to shred viruses by targeting RNA. The system's unique mechanism and three-dimensional structure were mapped using cryo-electron microscopy, allowing researchers to engineer it for improved precision and specificity.
Researchers used solid-state NMR to study the Fluc channel protein and discovered a new fluoride ion permeation model. The findings provide insights into the gating mechanisms in the Fluc channel, shedding light on its functionality.
Researchers uncover clues about how chemicals released by brain cells regulate our attention span, finding that two neurotransmitters work together in a precise sequence to regulate signal transmission. This discovery could lead to new treatments for neurological conditions associated with concentration difficulties.
Researchers developed a novel material that self-assembles into micelle structures targeting cancer cell lysosomes, specifically interacting with Cathepsin B. This leads to dysfunctional lysosomes and apoptotic death of cancer cells. The technology promises a new approach to combat drug resistance in cancer treatment.
Researchers at EMBL Grenoble have obtained the first structure of p38α being activated by MKK6, opening up new directions for developing drugs to stop cytokine storms. The inflammatory response is triggered by a series of kinases, and inactivating p38α could prevent inflammation from occurring.
Researchers found that AvrE/DspE family proteins, used by plant pathogens to cause disease, fold into a straw-like structure with a water channel. This discovery could lead to the development of new methods to disarm these proteins and prevent crop damage.
A new study published in eLife reveals the folding speed limit of helical membrane proteins using a robust single-molecule tweezer method. The findings provide unprecedented insights into structural states, kinetics, and energy barrier properties, offering valuable guidance for advancing pharmaceutical research and design.
Researchers have developed a novel neural network approach to design brand new proteins with unique arrangements and dynamic functionalities. The method combines attention neural networks with graph neural networks to predict existing protein properties and envision new proteins that nature has not yet devised.
Researchers at Scripps Research have identified a unique mitochondrial protein structure, DELE1, that plays a crucial role in activating the cell's integrated stress response. This discovery could lead to the development of new therapies for age-related diseases such as neurodegeneration and cancer.
A protein found in bacteria activates its enzymatic activity by up to 10,000 times when exposed to blue light, acting like an on-off switch. This discovery could lead to enhanced and optimized optogenetic tools and medical treatments.
A team of scientists has successfully elucidated the structure and function of LITE-1, a biomolecule used by Caenorhabditis elegans to detect danger. The researchers used artificial intelligence to predict the structure of LITE-1, which is a channel protein that forms a pore in the cell membrane allowing charged particles to pass through.
Researchers have created self-assembling protein-mimics that can selectivity transport water across membranes while rejecting salts, offering a potential solution to improve energy efficiency in industrial water purification. The oligourea foldamers are smaller and more stable than existing artificial water channels.
Researchers reconstructed six states of a rotary sodium ion pump using cryo-electron microscopy. The study found non-uniform rotation behavior due to structural interference between the rotor and stator components. This reveals a unique molecular mechanism of the rotary sodium ion pump.
Researchers detail structure and mechanism of short Argonaute protein, sparking hopes for therapeutic applications. The discovery may lead to engineering proteins that can detect threats or trigger cell death in healthy cells.
Researchers at Salk Institute discovered molecular mechanisms of HIV drug-resistance to Dolutegravir, a breakthrough that could lead to the development of new HIV therapeutics. The study revealed how changes in integrase protein structure can lead to resistance and how another compound, 4d, may overcome this resistance.
Researchers have successfully visualized the three-dimensional structure of human tRNA splicing endonuclease TSEN, a crucial enzyme in tRNA maturation. The study reveals how TSEN recognizes and excises introns from precursor tRNAs, shedding light on its role in neurodegenerative disorders like pontocerebellar hypoplasia.
EPFL researchers have created a novel biosensor, ImmunoSEIRA, to detect misfolded protein biomarkers linked to Parkinson's and Alzheimer's diseases. The sensor employs AI-powered neural networks for disease stage quantification and features gold nanorod arrays with antibodies for specific protein detection.
A recent study by the Eustermann group at EMBL Heidelberg reveals that DNA packaging into hexasomes impacts the function of enzymes involved in gene regulation. The researchers used cryo-electron microscopy to visualize the molecular processes of how this packaging regulates genome expression and maintenance.
Researchers have discovered a novel copper protein binding site that shows promise for use in magnetic resonance imaging (MRI) contrast agents, potentially leading to clearer images and improved diagnoses. The new structure displayed highly effective levels of relaxivity, equal and superior to existing Gd(III) agents used in clinical MRI.
Researchers identify at least 10,000 novel foldable αβ-folds, expanding our understanding of the protein universe. The discovery has significant implications for fields like drug development and enzyme design.
Researchers at the University of Virginia Health System have identified a novel mechanism by which hair cells can repair themselves after damage. This breakthrough understanding has the potential to develop new treatments for age-related hearing loss and other conditions.
Scientists have developed a method to engineer tubulins with precise post-translational modifications, revealing a new interplay between polyglutamylation and detyrosination. This breakthrough uncovers the tubulin code's connection to microtubule function and its regulation in cells.
The study uses AI-assisted methods to discover novel deaminase proteins with unique functions through structural prediction and classification, expanding the utility of base editors. New DNA base editors with remarkable features were developed, enabling tailor-made applications for various breeding efforts.
A new study reveals that the protein complex BCDX2 plays a critical role in DNA repair, suggesting mutations in this complex could lead to cancer. The research also highlights the importance of screening for mutations in people with a family history of breast and ovarian cancers.
Researchers discuss the potential of glucocorticoid-induced TNFR-related protein (GITR) as a target for cancer immunotherapy. Preclinical studies have shown potent anti-tumor efficacy, but clinical trials have yielded inconsistent results due to complexities in immune responses and antibody structure.
Researchers have developed a new way to identify proteins based on their amino acid content, which can predict protein function and facilitate the development of new biological drugs. The method shows promise in cancer research, where it can help design more targeted treatments by linking survivin and PRC2 proteins.
Researchers have developed a new AI model that can quickly screen large libraries of potential drug compounds against target proteins. The ConPLex model uses language analysis to match potential drugs with proteins without needing to calculate molecular structures, enabling fast screening of over 100 million compounds per day.
Researchers have revealed key atomic structures of actin filament ends using cryo-electron microscopy. The study provides fundamental insights into the mechanism behind actin filament polarity, shedding light on disorders such as muscle weakness and heart problems.
Researchers identified mRNAs and long non-coding RNAs targeted by stress granule proteins, which accumulate AD-associated gene transcripts in these structures. SGs may play a key role in regulating AD development through the impairment of protein neurohomeostasis.
A new study reveals the molecular structure of UCP1, allowing scientists to develop therapeutics that activate it to burn excess calories. This breakthrough could combat obesity and related diseases like diabetes by activating brown fat tissue.
A team at Penn State has produced high-resolution images of SARS-CoV-2's protease protein and polyprotein complex. The research reveals a consistent order in which the proteins are cleaved, potentially supporting more efficient antiviral drugs.
A team of scientists led by Professor Ivan Đikić and Christian Hübner identified the role of ubiquitin in regulating ER-phagy, a process involved in the degradation of the endoplasmic reticulum. This discovery sheds light on neurodegenerative diseases caused by defective FAM134B and ARL6IP1 proteins.
Scientists at Scripps Research have determined the structure of the critical protein complex that lets Lassa virus infect human cells, identifying new antibodies and vaccine targets. The research also found a high level of conservation across different lineages of the virus, paving the way for more effective vaccines and treatments.
A recently discovered protein domain, MOTH, has been found to regulate collagen transport between cells and organelles. This domain, which evolved over several hundred million years, is responsible for identifying and transporting the collagen protein.
A research team at Göttingen University has discovered that mobile and stationary cells have different mechanical properties due to their cytoskeleton. The study found that intermediate filaments, which are crucial for cell stability, exhibit metal-like plasticity when stretched, similar to non-biological materials.
Researchers identified the structure of a special type of amyloid beta plaque protein associated with Alzheimer's disease progression. Lecanemab, an approved AD treatment, can bind and neutralize these small aggregates, potentially slowing cognitive decline in patients with early AD.
Researchers developed Foldseek, a protein structure search tool that reduces search time from months to seconds while maintaining sensitivity. The tool uses sequence search tools instead of direct 3D structure comparison, making it an invaluable asset for life science fields.
Researchers at EPFL have computationally designed novel protein binders that attach seamlessly to key targets, including the SARS-CoV-2 spike protein, using deep learning-generated 'fingerprints' to characterize millions of protein fragments. This method demonstrates therapeutic potential for rapidly designing protein-based therapeutics.
Researchers have developed a system that uses generative diffusion to create new proteins, advancing the field of generative biology. The system, called ProteinSGM, learns from image representations to generate fully new proteins, which are biophysically real and functional.
Researchers have discovered that nuclear pore IDPs form a dynamic barrier that allows essential cellular factors to pass while blocking viruses and pathogens. The team used synthetic biology, multidimensional fluorescence microscopy, and computer-based simulations to study IDPs in living cells.
A new study reveals that a Cas protein and a membrane protein work together to enhance anti-viral defense in bacteria. The team found that the membrane protein forms a pore-like structure that disrupts energy production and hinders virus replication, effectively 'pulling the plug' on viral infections.
The City University of Hong Kong has developed a novel electron microscope that combines scanning and transmission electron microscope modes in a compact format. The device can produce high-resolution images in five minutes, enabling the study of atom dynamics and beam-sensitive materials.
Researchers have elucidated the mechanism of CELSR cadherin dimerization, revealing a twisted cell-cell adhesion molecule complex structure. The extracellular domains of CELSR cadherins exhibited strand- and globule-like portions, which bound through strand-like structures in an antiparallel orientation.
Researchers successfully applied reinforcement learning to protein design, creating proteins with improved antibody generation and accurate nano-structures. The approach may lead to more potent vaccines and novel applications in regenerative medicine.
Researchers from Penn State and Ohio State University used structural biology, biophysics, and cell biology to understand how pioneer factors interact with nucleosomes. They found that a specific region of the protein helps it access DNA, making it accessible for proteins involved in gene expression.
Researchers developed machine-learning algorithms to generate proteins with specific structural features, enabling the creation of biologically inspired materials. The models can produce millions of new protein ideas in a few days, allowing scientists to explore unique applications.
A team of researchers compared 1,800 de novo proteins from fruit flies and humans with computer-generated proteins, revealing small but significant differences in their stability and solubility. The study suggests that natural selection may play a role in the early emergence of these proteins.
Researchers at the University of Tokyo have discovered the 3D structure of TnpB, a protein involved in genome editing and a probable precursor to the CRISPR-Cas12 enzyme. The study reveals how TnpB recognizes and cuts DNA using a unique pseudoknot shape similar to that found in guide RNAs of Cas12 enzymes.
Researchers discuss cortactin's impact on cancer progression by modulating the Wnt5a/ROR1 signaling pathway. Cortactin expression is found in various cancers, including breast and chronic lymphocytic leukemia, suggesting its potential role in promoting metastasis.
A WPI-led team used computational modeling to create a detailed picture of the SARS-COV-2 virus envelope, revealing its elliptical shape and changing structure. This discovery could lead to more effective therapies and vaccines, as well as a better understanding of the virus's properties.
Scientists at UvA have created a new, highly improved bright red fluorescent protein called mScarlet3. This variant combines maximum brightness with fast and complete folding, making it an ideal tool for researchers studying cellular processes.
A global analysis of coronavirus protein research found that countries with larger economies generated more 3D structure determinations for the protein components of coronaviruses. However, there were many outliers, with some advanced and prosperous countries publishing few or no structures, while others strongly affected by COVID-19 p...