Browse

Author Profile

Browsing by Subject protein

Jump to: 0-9 A B C D E F G H I J K L M N O P Q R S T U V W X Y Z
or enter first few letters:  
Showing results 48 to 67 of 87
  • OER000002555.pdf.jpg
  • Journal article

  • Phase Separation and Ageing of Glycine-Rich Protein from Tick Adhesive

    • Authors : Ganar, Ketan A. (2023)

  • Hard ticks feed on their host for multiple days. To ensure firm attachment, they secrete a protein-rich saliva that eventually forms a solid cement cone. The underlying mechanism of this liquid-to-solid transition is not yet understood. This study focuses on the phase transitions of a disordered glycine- rich protein (GRP) that is prominent in tick saliva. We show that GRP undergoes liquid-liquid phase separation via simple coacervatio...
  • OER000002746.pdf.jpg
  • Journal article

  • Phenotyping technology for assessing protein content in seaweed by field spectroscopy and a machine learning algorithm

    • Authors : Shalev, Niva Tadmor (2023)

  • Determining seaweed protein concentration and the associated phenotype is critical for food industries that require precise tools to moderate concentration fluctuations and attenuate risks. Algal protein extraction and profiling have been widely investigated, but content determination involves a costly, time-consuming, and high-energy, laboratory-based fractionation technique. The present study examines the potential of field spectroscopy technology as a precise, high-...
  • OER000002749.pdf.jpg
  • Journal article

  • Pre-analytical processing of plasma and serum samples for combined proteome and metabolome analysis

    • Authors : Gegner, Hagen M. (2023)

  • Metabolomic and proteomic analyses of human plasma and serum samples harbour the power to advance our understanding of disease biology. Pre-analytical factors may contribute to variability and bias in the detection of analytes, especially when multiple labs are involved, caused by sample handling, processing time, and differing operating procedures. To better understand the impact of pre-analytical factors that are relevant to implement a unified proteomic and...
  • OER000002283.pdf.jpg
  • Journal Article

  • Protein Ensemble Generation through Variational Autoencoder Latent Space Sampling

    • Authors : Mansoor, Sanaa (2023)

  • Mapping the ensemble of protein conformations that contribute to function and can be targeted by small molecule drugs remains an outstanding challenge. Here we explore the use of soft-introspective variational autoencoders for reducing the challenge of dimensionality in the protein structure ensemble generation problem. We convert high-dimensional protein structural data into a continuous, low-dimensional representation, carry out search in this space guided&#...
  • OER000002765.pdf.jpg
  • Journal article

  • Protein-Peptide Turnover Profiling reveals wiring of phosphorylation during protein maturation

    • Authors : Hammarén, Henrik M. (2023)

  • Post-translational modifications (PTMs) regulate various aspects of protein function, including degradation. Mass spectrometric methods that rely on pulsed metabolic labeling are very popular to quantify turnover rates on a proteome-wide scale. Such data have often been interpreted in the context of protein proteolytic stability. Here, we combine theoretical kinetic modeling with experimental pulsed stable isotope labeling of amino acids in cell culture&...
  • OER000002407.pdf.jpg
  • Journal Article

  • SARS-CoV-2 Nonstructural Proteins 3 and 4 tune the Unfolded Protein Response

    • Authors : Davies, Jonathan P. (2023)

  • Coronaviruses (CoV), including SARS-CoV-2, modulate host proteostasis through activation of stress-responsive signaling pathways such as the Unfolded Protein Response (UPR), which remedies misfolded protein accumulation by attenuating translation and increasing protein folding capacity. While CoV nonstructural proteins (nsps) are essential for infection, little is known about the role of nsps in modulating the UPR. We characterized the impact of SARS-CoV-2 ns...
  • OER000002488.pdf.jpg
  • Journal Article

  • SARS-COV-2 Spike Protein Fragment eases Amyloidogenesis of α-Synuclein

    • Authors : Chesney, Andrew D (2023)

  • Parkinson’s Disease is accompanied by presence of amyloids in the brain formed of α-synuclein chains. Correlation between COVID-19 and the onset of Parkinson’s disease let to the idea that amyloidogenic segments in SARS-COV-2 proteins can induce aggregation of α-synuclein. Using molecular dynamic simulations, we show that the fragment FKNIDGYFKI of the spike protein, which is unique for SARS-COV-2, shifts preferentially the ensemble of α-synuclein&#x...
  • OER000002764.pdf.jpg
  • Journal article

  • Screening of candidate host cell membrane proteins involved in SARS-CoV-2 entry

    • Authors : Kotani, Norihiro (2023)

  • Coronavirus disease (COVID-19) represents a real threat to the global population, and understanding the biological features of the causative virus, i.e., severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2), is imperative for mitigating this threat. Analyses of proteins such as primary receptors and co-receptors (co-factors), which are involved in the entry of SARSCoV- 2 into host cells, will provide important clues to help control the virus. Here,&#...
  • OER000002744.pdf.jpg
  • Journal article

  • Selenocyanate Derived Se-Incorporation into the Nitrogenase Fe Protein Cluster

    • Authors : Buscagan, Trixia M. (2023)

  • The nitrogenase Fe protein mediates ATP-dependent electron transfer to the nitrogenase MoFe protein during nitrogen fixation, in addition to catalyzing MoFe protein independent substrate (CO2) reduction and facilitating MoFe protein metallocluster biosynthesis. The precise role(s) of the Fe protein Fe4S4 cluster in some of these processes remains ill-defined. Herein, we report crystallographic data demonstrating ATP-dependent chalcogenide exchange at the Fe4S4 clus...
  • OER000003040.pdf.jpg
  • Journal article

  • Stability of ligand-induced protein conformation influences affinity in maltose-binding protein

    • Authors : Noort, Marco van den (2021)

  • Our understanding of what determines ligand affinity of proteins is poor, even with highresolution structures available. Both the non-covalent ligand-protein interactions and the relative free energies of available conformations contribute to the affinity of a protein for a ligand. Distant, non-binding site residues can influence the ligand affinity by altering the free energy difference between a ligand-free and ligand-bound conformation. Our hypothesis isthat...
  • OER000002914.pdf.jpg
  • Journal article

  • Structural probing of Hsp26 activation and client binding by quantitative cross-linking mass spectrometry

    • Authors : Fürsch, Julius (2021)

  • Small heat-shock proteins (sHSP) are important members of the cellular stress response in all species. Their best described function is the binding of early unfolding states and the resulting prevention of protein aggregation. Most sHSPs exist as oligomers but vary in size and subunit organization. Many sHSPs exist as a polydisperse composition of oligomers which undergoes changes in subunit composition, folding status and rel...
  • OER000002386.pdf.jpg
  • Journal Article

  • Structural properties of the HNF-1A transactivation domain

    • Authors : Kind, Laura (2023)

  • Hepatocyte nuclear factor 1α (HNF-1A) is a transcription factor with important gene regulatory roles in pancreatic β-cells. HNF1A gene variants are associated with a monogenic form of diabetes (HNF1A-MODY) or an increased risk for type 2 diabetes. While several pancreatic target genes of HNF-1A have been described, a lack of knowledge regarding the structure-function relationships in HNF-1A prohibits a detailed understanding of HNF-1A-mediated gene transcription, ...
  • OER000002314.pdf.jpg
  • Journal Article

  • Structure of HK97 small terminase:DNA complex unveils a novel DNA binding mechanism by a circular protein

    • Authors : chechik, Maria (2023)

  • The large group of dsDNA viruses comprising tailed bacteriophages and herpesviruses assemble by packaging their DNA into preformed procapsids. The key component ensuring specific recognition of bacteriophage DNA from the mixture of all the nucleic acids contained in the host cell, and initiating its packaging is the small terminase protein. The nascent genome is usually produced as multiple copies, joined head-to-tail, in long concatemers of dsDN...
  • OER000003050.pdf.jpg
  • Journal article

  • Sulfonated rhodamines as impermeable labelling substrates for cell surface protein visualization

    • Authors : Birke, Ramona (2021)

  • Sulfonated rhodamines that endow xanthene dyes with cellular impermeability are presented. We fuse charged sulfonates to red and far-red dyes to obtain Sulfo549 and Sulfo646, respectively, and further link these to SNAP- and Halo-tag substrates for protein self-labelling. Cellular impermeability is validated in live cell imaging experiments in transfected HEK cells and neurons derived from induced pluripotent stem cells (iPSCs). Lastly, we show that&...