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- https://bio.libretexts.org/Bookshelves/Biochemistry/Fundamentals_of_Biochemistry_(Jakubowski_and_Flatt)/01%3A_Unit_I-_Structure_and_Catalysis/05%3A_Protein_Function/5.04%3A_B._The_Innate_Immune_System_PAMPs_and_DAMPs_and_InflammationThis page discusses biochemistry learning goals, focusing on protein-ligand interactions and the immune system. Topics include immune response mechanisms, the role of signaling molecules like cGAMP, a...This page discusses biochemistry learning goals, focusing on protein-ligand interactions and the immune system. Topics include immune response mechanisms, the role of signaling molecules like cGAMP, and the importance of mRNA vaccines. It explains pathogen recognition via pattern recognition receptors, inflammasome formation involving proteins like ASC, and the activation of NLRP3 by PAMPS and DAMPS.
- https://bio.libretexts.org/Bookshelves/Biochemistry/Fundamentals_of_Biochemistry_(Jakubowski_and_Flatt)/01%3A_Unit_I-_Structure_and_Catalysis/05%3A_Protein_Function/5.06%3A__Binding_-_Conformational_Selections_and_Intrinsically_Disordered_ProteinsThe page outlines learning goals related to protein-ligand interactions, focusing on induced fit and conformational selection, intrinsically disordered proteins (IDPs), and Molecular Recognition Featu...The page outlines learning goals related to protein-ligand interactions, focusing on induced fit and conformational selection, intrinsically disordered proteins (IDPs), and Molecular Recognition Features (MoRFs). It describes models of protein-ligand binding, explores mechanisms of coupling folding and binding, and discusses the role of intrinsic disorder in cellular functions.
- https://bio.libretexts.org/Bookshelves/Biochemistry/Fundamentals_of_Biochemistry_(Jakubowski_and_Flatt)/01%3A_Unit_I-_Structure_and_Catalysis/05%3A_Protein_Function/5.03%3A_B._Other_Allosteric_ProteinsThis page covers the intricacies of allosterism in biochemistry, focusing on myoglobin, hemoglobin, and various enzymes, including lactate dehydrogenase and phosphofructokinases. It discusses structur...This page covers the intricacies of allosterism in biochemistry, focusing on myoglobin, hemoglobin, and various enzymes, including lactate dehydrogenase and phosphofructokinases. It discusses structural transformations in viral enzymes and the significance of Lenacapavir as an HIV drug. The text details the kinetic behaviors of enzymes and the influence of ligand concentrations on activity.
- https://bio.libretexts.org/Bookshelves/Biochemistry/Fundamentals_of_Biochemistry_(Jakubowski_and_Flatt)/01%3A_Unit_I-_Structure_and_Catalysis/09%3A_Investigating_DNA/9.02%3A_BioinformaticsThe introduction discusses the significant impact of technological advances on science, particularly in generating and managing "omic" data. The complexities in understanding this data in biology and ...The introduction discusses the significant impact of technological advances on science, particularly in generating and managing "omic" data. The complexities in understanding this data in biology and bioinformatics present challenges that are addressed through new computational tools and interdisciplinary approaches.
- https://bio.libretexts.org/Bookshelves/Biochemistry/Fundamentals_of_Biochemistry_(Jakubowski_and_Flatt)/01%3A_Unit_I-_Structure_and_Catalysis/05%3A_Protein_Function/5.02%3A_Techniques_to_Measure_BindingIt is often essential to determine the KD for a ML complex since given that number and the concentrations of M and L in the system, we can then predict if M is bound under physiological conditions. Ag...It is often essential to determine the KD for a ML complex since given that number and the concentrations of M and L in the system, we can then predict if M is bound under physiological conditions. Again, this is important since whether M is bound or free will govern its activity. To determine KD, you need to determine ML and L at equilibrium. How can we differentiate free from bound ligand? The following techniques allow such a differentiation.
- https://bio.libretexts.org/Bookshelves/Biochemistry/Fundamentals_of_Biochemistry_(Jakubowski_and_Flatt)/01%3A_Unit_I-_Structure_and_Catalysis/11%3A_Biological_Membranes_and_Transport/11.01%3A_Membrane_and_Membrane_ProteinsThe page outlines advanced learning goals for junior and senior biochemistry majors, focusing on membrane proteins. Key topics include classifying membrane proteins, exploring differences between tran...The page outlines advanced learning goals for junior and senior biochemistry majors, focusing on membrane proteins. Key topics include classifying membrane proteins, exploring differences between transmembrane and peripheral proteins, understanding chemical anchors like lipid modifications, studying lipid aggregates for membrane protein research, and analyzing examples of transmembrane proteins such as channels, transporters, and receptors.
- https://bio.libretexts.org/Bookshelves/Biochemistry/Fundamentals_of_Biochemistry_(Jakubowski_and_Flatt)/01%3A_Unit_I-_Structure_and_Catalysis/04%3A_The_Three-Dimensional_Structure_of_Proteins/4.07%3A_Fibrillar_ProteinsThe page discusses various fibrillar proteins, focusing on their structure, function, and role in biological systems. It describes different types of fibrillar proteins, such as collagen, ??-keratin, ...The page discusses various fibrillar proteins, focusing on their structure, function, and role in biological systems. It describes different types of fibrillar proteins, such as collagen, ??-keratin, elastin, and fibrinogen, and highlights their structural characteristics, including unique amino acid compositions and hierarchical organizations.
- https://bio.libretexts.org/Bookshelves/Biochemistry/Fundamentals_of_Biochemistry_(Jakubowski_and_Flatt)/Unit_IV_-_Special_Topics/28%3A_Biosignaling_-_Capstone_Volume_I/28.08%3A_Receptor_Guanylyl_Cyclases_cGMP_and_Protein_Kinase_GThis page delves into the roles of receptor guanylyl cyclases in signal transduction, emphasizing their conversion of GTP to cGMP and their influence on intracellular signaling. It explores the struct...This page delves into the roles of receptor guanylyl cyclases in signal transduction, emphasizing their conversion of GTP to cGMP and their influence on intracellular signaling. It explores the structure and activation mechanisms of receptor guanylyl cyclases and discusses the synthesis of nitric oxide (NO) and its role in cGMP production.
- https://bio.libretexts.org/Bookshelves/Biochemistry/Fundamentals_of_Biochemistry_(Jakubowski_and_Flatt)/01%3A_Unit_I-_Structure_and_Catalysis/05%3A_Protein_Function/5.05%3A_Protein_Interactions_Modulated_by_Chemical_Energy-_Actin_Myosin_and_Molecular_MotorsThis page provides an in-depth exploration of the structural and functional aspects of molecular motors like myosin, kinesin, and dynein, focusing on their roles in muscle contraction and cellular mot...This page provides an in-depth exploration of the structural and functional aspects of molecular motors like myosin, kinesin, and dynein, focusing on their roles in muscle contraction and cellular motility. It covers the actomyosin cross-bridge cycle, the interaction of actin and myosin, and the regulation of muscle contraction through proteins like troponin and tropomyosin, with a detailed explanation of the biochemical underpinnings of these processes.
- https://bio.libretexts.org/Bookshelves/Biochemistry/Fundamentals_of_Biochemistry_(Jakubowski_and_Flatt)/01%3A_Unit_I-_Structure_and_Catalysis/05%3A_Protein_Function/5.04%3A_A._The_Immune_System_-_Antibodies_B-_cells_T-cell_receptors_and_T-cellsThis page provides an overview of the immune system's functionality, detailing the roles of both innate and adaptive immunity, particularly focusing on the mechanisms of B cells and T cells. Key eleme...This page provides an overview of the immune system's functionality, detailing the roles of both innate and adaptive immunity, particularly focusing on the mechanisms of B cells and T cells. Key elements include the structure and diversity of antibodies, significance of immunoglobulin domains, and the dynamics of antibody-antigen interactions.
- https://bio.libretexts.org/Bookshelves/Biochemistry/Fundamentals_of_Biochemistry_(Jakubowski_and_Flatt)/01%3A_Unit_I-_Structure_and_Catalysis/04%3A_The_Three-Dimensional_Structure_of_Proteins/4.02%3A_Secondary_Structure_and_LoopsThe page provides a detailed exploration of secondary structures in proteins, focusing on alpha helices, beta sheets (parallel and antiparallel), 310 helices, pi helices, and loops and turns. It expla...The page provides a detailed exploration of secondary structures in proteins, focusing on alpha helices, beta sheets (parallel and antiparallel), 310 helices, pi helices, and loops and turns. It explains the roles of hydrogen bonds in stabilizing structures and discusses sequence determinants that influence structural propensities. The text also covers the characteristics and roles of loops, turns, and linkers, and examines amino acid propensities for forming different secondary structures.
