Ligands: A molecule that binds to another molecule, used especially to refer to a small molecule that binds specifically to a larger molecule, e.g., an antigen binding to an antibody, a hormone or neurotransmitter binding to a receptor, or a substrate or allosteric effector binding to an enzyme. Ligands are also molecules that donate or accept a pair of electrons to form a coordinate covalent bond with the central metal atom of a coordination complex. (From Dorland, 27th ed)CD40 Ligand: A membrane glycoprotein and differentiation antigen expressed on the surface of T-cells that binds to CD40 ANTIGENS on B-LYMPHOCYTES and induces their proliferation. Mutation of the gene for CD40 ligand is a cause of HYPER-IGM IMMUNODEFICIENCY SYNDROME, TYPE 1.Fas Ligand Protein: A transmembrane protein belonging to the tumor necrosis factor superfamily that was originally discovered on cells of the lymphoid-myeloid lineage, including activated T-LYMPHOCYTES and NATURAL KILLER CELLS. It plays an important role in immune homeostasis and cell-mediated toxicity by binding to the FAS RECEPTOR and triggering APOPTOSIS.Protein Binding: The process in which substances, either endogenous or exogenous, bind to proteins, peptides, enzymes, protein precursors, or allied compounds. Specific protein-binding measures are often used as assays in diagnostic assessments.RANK Ligand: A transmembrane protein belonging to the tumor necrosis factor superfamily that specifically binds RECEPTOR ACTIVATOR OF NUCLEAR FACTOR-KAPPA B and OSTEOPROTEGERIN. It plays an important role in regulating OSTEOCLAST differentiation and activation.Binding Sites: The parts of a macromolecule that directly participate in its specific combination with another molecule.Models, Molecular: Models used experimentally or theoretically to study molecular shape, electronic properties, or interactions; includes analogous molecules, computer-generated graphics, and mechanical structures.Molecular Sequence Data: Descriptions of specific amino acid, carbohydrate, or nucleotide sequences which have appeared in the published literature and/or are deposited in and maintained by databanks such as GENBANK, European Molecular Biology Laboratory (EMBL), National Biomedical Research Foundation (NBRF), or other sequence repositories.Amino Acid Sequence: The order of amino acids as they occur in a polypeptide chain. This is referred to as the primary structure of proteins. It is of fundamental importance in determining PROTEIN CONFORMATION.CD30 Ligand: A membrane-bound tumor necrosis family member found primarily on activated T-LYMPHOCYTES that binds specifically to CD30 ANTIGEN. It may play a role in INFLAMMATION and immune regulation.Membrane Glycoproteins: Glycoproteins found on the membrane or surface of cells.TNF-Related Apoptosis-Inducing Ligand: A transmembrane-protein belonging to the TNF family of intercellular signaling proteins. It is a widely expressed ligand that activates APOPTOSIS by binding to TNF-RELATED APOPTOSIS-INDUCING LIGAND RECEPTORS. The membrane-bound form of the protein can be cleaved by specific CYSTEINE ENDOPEPTIDASES to form a soluble ligand form.Signal Transduction: The intracellular transfer of information (biological activation/inhibition) through a signal pathway. In each signal transduction system, an activation/inhibition signal from a biologically active molecule (hormone, neurotransmitter) is mediated via the coupling of a receptor/enzyme to a second messenger system or to an ion channel. Signal transduction plays an important role in activating cellular functions, cell differentiation, and cell proliferation. Examples of signal transduction systems are the GAMMA-AMINOBUTYRIC ACID-postsynaptic receptor-calcium ion channel system, the receptor-mediated T-cell activation pathway, and the receptor-mediated activation of phospholipases. Those coupled to membrane depolarization or intracellular release of calcium include the receptor-mediated activation of cytotoxic functions in granulocytes and the synaptic potentiation of protein kinase activation. Some signal transduction pathways may be part of larger signal transduction pathways; for example, protein kinase activation is part of the platelet activation signal pathway.OX40 Ligand: A membrane-bound tumor necrosis family member that is expressed on activated antigen-presenting cells such as B-LYMPHOCYTES and MACROPHAGES. It signals T-LYMPHOCYTES by binding the OX40 RECEPTOR.Protein Structure, Tertiary: The level of protein structure in which combinations of secondary protein structures (alpha helices, beta sheets, loop regions, and motifs) pack together to form folded shapes called domains. Disulfide bridges between cysteines in two different parts of the polypeptide chain along with other interactions between the chains play a role in the formation and stabilization of tertiary structure. Small proteins usually consist of only one domain but larger proteins may contain a number of domains connected by segments of polypeptide chain which lack regular secondary structure.Protein Conformation: The characteristic 3-dimensional shape of a protein, including the secondary, supersecondary (motifs), tertiary (domains) and quaternary structure of the peptide chain. PROTEIN STRUCTURE, QUATERNARY describes the conformation assumed by multimeric proteins (aggregates of more than one polypeptide chain).Kinetics: The rate dynamics in chemical or physical systems.Cell Line: Established cell cultures that have the potential to propagate indefinitely.Cells, Cultured: Cells propagated in vitro in special media conducive to their growth. Cultured cells are used to study developmental, morphologic, metabolic, physiologic, and genetic processes, among others.Binding, Competitive: The interaction of two or more substrates or ligands with the same binding site. The displacement of one by the other is used in quantitative and selective affinity measurements.Crystallography, X-Ray: The study of crystal structure using X-RAY DIFFRACTION techniques. (McGraw-Hill Dictionary of Scientific and Technical Terms, 4th ed)4-1BB Ligand: A membrane bound member of the TNF superfamily that is expressed on activated B-LYMPHOCYTES; MACROPHAGES; and DENDRITIC CELLS. The ligand is specific for the 4-1BB RECEPTOR and may play a role in inducing the proliferation of activated peripheral blood T-LYMPHOCYTES.Receptors, Cell Surface: Cell surface proteins that bind signalling molecules external to the cell with high affinity and convert this extracellular event into one or more intracellular signals that alter the behavior of the target cell (From Alberts, Molecular Biology of the Cell, 2nd ed, pp693-5). Cell surface receptors, unlike enzymes, do not chemically alter their ligands.Structure-Activity Relationship: The relationship between the chemical structure of a compound and its biological or pharmacological activity. Compounds are often classed together because they have structural characteristics in common including shape, size, stereochemical arrangement, and distribution of functional groups.Membrane Proteins: Proteins which are found in membranes including cellular and intracellular membranes. They consist of two types, peripheral and integral proteins. They include most membrane-associated enzymes, antigenic proteins, transport proteins, and drug, hormone, and lectin receptors.Recombinant Proteins: Proteins prepared by recombinant DNA technology.Mice, Inbred C57BLMolecular Structure: The location of the atoms, groups or ions relative to one another in a molecule, as well as the number, type and location of covalent bonds.Antigens, CD95: A tumor necrosis factor receptor subtype found in a variety of tissues and on activated LYMPHOCYTES. It has specificity for FAS LIGAND and plays a role in regulation of peripheral immune responses and APOPTOSIS. Multiple isoforms of the protein exist due to multiple ALTERNATIVE SPLICING. The activated receptor signals via a conserved death domain that associates with specific TNF RECEPTOR-ASSOCIATED FACTORS in the CYTOPLASM.CHO Cells: CELL LINE derived from the ovary of the Chinese hamster, Cricetulus griseus (CRICETULUS). The species is a favorite for cytogenetic studies because of its small chromosome number. The cell line has provided model systems for the study of genetic alterations in cultured mammalian cells.Programmed Cell Death 1 Ligand 2 Protein: A costimulatory B7 antigen that has specificity for the T-CELL receptor PROGRAMMED CELL DEATH 1 RECEPTOR. It is closely-related to CD274 antigen; however, its expression is restricted to DENDRITIC CELLS and activated MACROPHAGES.Receptors, Immunologic: Cell surface molecules on cells of the immune system that specifically bind surface molecules or messenger molecules and trigger changes in the behavior of cells. Although these receptors were first identified in the immune system, many have important functions elsewhere.Transfection: The uptake of naked or purified DNA by CELLS, usually meaning the process as it occurs in eukaryotic cells. It is analogous to bacterial transformation (TRANSFORMATION, BACTERIAL) and both are routinely employed in GENE TRANSFER TECHNIQUES.Receptors, TNF-Related Apoptosis-Inducing Ligand: Tumor necrosis factor receptor family members that are widely expressed and play a role in regulation of peripheral immune responses and APOPTOSIS. The receptors are specific for TNF-RELATED APOPTOSIS-INDUCING LIGAND and signal via conserved death domains that associate with specific TNF RECEPTOR-ASSOCIATED FACTORS in the CYTOPLASM.Radioligand Assay: Quantitative determination of receptor (binding) proteins in body fluids or tissue using radioactively labeled binding reagents (e.g., antibodies, intracellular receptors, plasma binders).Recombinant Fusion Proteins: Recombinant proteins produced by the GENETIC TRANSLATION of fused genes formed by the combination of NUCLEIC ACID REGULATORY SEQUENCES of one or more genes with the protein coding sequences of one or more genes.Peptides: Members of the class of compounds composed of AMINO ACIDS joined together by peptide bonds between adjacent amino acids into linear, branched or cyclical structures. OLIGOPEPTIDES are composed of approximately 2-12 amino acids. Polypeptides are composed of approximately 13 or more amino acids. PROTEINS are linear polypeptides that are normally synthesized on RIBOSOMES.Carrier Proteins: Transport proteins that carry specific substances in the blood or across cell membranes.Cricetinae: A subfamily in the family MURIDAE, comprising the hamsters. Four of the more common genera are Cricetus, CRICETULUS; MESOCRICETUS; and PHODOPUS.Apoptosis: One of the mechanisms by which CELL DEATH occurs (compare with NECROSIS and AUTOPHAGOCYTOSIS). Apoptosis is the mechanism responsible for the physiological deletion of cells and appears to be intrinsically programmed. It is characterized by distinctive morphologic changes in the nucleus and cytoplasm, chromatin cleavage at regularly spaced sites, and the endonucleolytic cleavage of genomic DNA; (DNA FRAGMENTATION); at internucleosomal sites. This mode of cell death serves as a balance to mitosis in regulating the size of animal tissues and in mediating pathologic processes associated with tumor growth.Base Sequence: The sequence of PURINES and PYRIMIDINES in nucleic acids and polynucleotides. It is also called nucleotide sequence.Receptors, G-Protein-Coupled: The largest family of cell surface receptors involved in SIGNAL TRANSDUCTION. They share a common structure and signal through HETEROTRIMERIC G-PROTEINS.Receptors, Cytoplasmic and Nuclear: Intracellular receptors that can be found in the cytoplasm or in the nucleus. They bind to extracellular signaling molecules that migrate through or are transported across the CELL MEMBRANE. Many members of this class of receptors occur in the cytoplasm and are transported to the CELL NUCLEUS upon ligand-binding where they signal via DNA-binding and transcription regulation. Also included in this category are receptors found on INTRACELLULAR MEMBRANES that act via mechanisms similar to CELL SURFACE RECEPTORS.Mutagenesis, Site-Directed: Genetically engineered MUTAGENESIS at a specific site in the DNA molecule that introduces a base substitution, or an insertion or deletion.RNA, Messenger: RNA sequences that serve as templates for protein synthesis. Bacterial mRNAs are generally primary transcripts in that they do not require post-transcriptional processing. Eukaryotic mRNA is synthesized in the nucleus and must be exported to the cytoplasm for translation. Most eukaryotic mRNAs have a sequence of polyadenylic acid at the 3' end, referred to as the poly(A) tail. The function of this tail is not known for certain, but it may play a role in the export of mature mRNA from the nucleus as well as in helping stabilize some mRNA molecules by retarding their degradation in the cytoplasm.Cell Adhesion: Adherence of cells to surfaces or to other cells.Cell Line, Tumor: A cell line derived from cultured tumor cells.Mice, Knockout: Strains of mice in which certain GENES of their GENOMES have been disrupted, or "knocked-out". To produce knockouts, using RECOMBINANT DNA technology, the normal DNA sequence of the gene being studied is altered to prevent synthesis of a normal gene product. Cloned cells in which this DNA alteration is successful are then injected into mouse EMBRYOS to produce chimeric mice. The chimeric mice are then bred to yield a strain in which all the cells of the mouse contain the disrupted gene. Knockout mice are used as EXPERIMENTAL ANIMAL MODELS for diseases (DISEASE MODELS, ANIMAL) and to clarify the functions of the genes.Antigens, CD: Differentiation antigens residing on mammalian leukocytes. CD stands for cluster of differentiation, which refers to groups of monoclonal antibodies that show similar reactivity with certain subpopulations of antigens of a particular lineage or differentiation stage. The subpopulations of antigens are also known by the same CD designation.Sequence Homology, Amino Acid: The degree of similarity between sequences of amino acids. This information is useful for the analyzing genetic relatedness of proteins and species.Mutation: Any detectable and heritable change in the genetic material that causes a change in the GENOTYPE and which is transmitted to daughter cells and to succeeding generations.Flow Cytometry: Technique using an instrument system for making, processing, and displaying one or more measurements on individual cells obtained from a cell suspension. Cells are usually stained with one or more fluorescent dyes specific to cell components of interest, e.g., DNA, and fluorescence of each cell is measured as it rapidly transverses the excitation beam (laser or mercury arc lamp). Fluorescence provides a quantitative measure of various biochemical and biophysical properties of the cell, as well as a basis for cell sorting. Other measurable optical parameters include light absorption and light scattering, the latter being applicable to the measurement of cell size, shape, density, granularity, and stain uptake.Intercellular Signaling Peptides and Proteins: Regulatory proteins and peptides that are signaling molecules involved in the process of PARACRINE COMMUNICATION. They are generally considered factors that are expressed by one cell and are responded to by receptors on another nearby cell. They are distinguished from HORMONES in that their actions are local rather than distal.Receptors, sigma: A class of cell surface receptors recognized by its pharmacological profile. Sigma receptors were originally considered to be opioid receptors because they bind certain synthetic opioids. However they also interact with a variety of other psychoactive drugs, and their endogenous ligand is not known (although they can react to certain endogenous steroids). Sigma receptors are found in the immune, endocrine, and nervous systems, and in some peripheral tissues.Cell Membrane: The lipid- and protein-containing, selectively permeable membrane that surrounds the cytoplasm in prokaryotic and eukaryotic cells.Antibodies, Monoclonal: Antibodies produced by a single clone of cells.Thermodynamics: A rigorously mathematical analysis of energy relationships (heat, work, temperature, and equilibrium). It describes systems whose states are determined by thermal parameters, such as temperature, in addition to mechanical and electromagnetic parameters. (From Hawley's Condensed Chemical Dictionary, 12th ed)Oligopeptides: Peptides composed of between two and twelve amino acids.Lymphocyte Activation: Morphologic alteration of small B LYMPHOCYTES or T LYMPHOCYTES in culture into large blast-like cells able to synthesize DNA and RNA and to divide mitotically. It is induced by INTERLEUKINS; MITOGENS such as PHYTOHEMAGGLUTININS, and by specific ANTIGENS. It may also occur in vivo as in GRAFT REJECTION.T-Lymphocytes: Lymphocytes responsible for cell-mediated immunity. Two types have been identified - cytotoxic (T-LYMPHOCYTES, CYTOTOXIC) and helper T-lymphocytes (T-LYMPHOCYTES, HELPER-INDUCER). They are formed when lymphocytes circulate through the THYMUS GLAND and differentiate to thymocytes. When exposed to an antigen, they divide rapidly and produce large numbers of new T cells sensitized to that antigen.Dimerization: The process by which two molecules of the same chemical composition form a condensation product or polymer.Molecular Conformation: The characteristic three-dimensional shape of a molecule.Drug Design: The molecular designing of drugs for specific purposes (such as DNA-binding, enzyme inhibition, anti-cancer efficacy, etc.) based on knowledge of molecular properties such as activity of functional groups, molecular geometry, and electronic structure, and also on information cataloged on analogous molecules. Drug design is generally computer-assisted molecular modeling and does not include pharmacokinetics, dosage analysis, or drug administration analysis.Proteins: Linear POLYPEPTIDES that are synthesized on RIBOSOMES and may be further modified, crosslinked, cleaved, or assembled into complex proteins with several subunits. The specific sequence of AMINO ACIDS determines the shape the polypeptide will take, during PROTEIN FOLDING, and the function of the protein.Protein Structure, Secondary: The level of protein structure in which regular hydrogen-bond interactions within contiguous stretches of polypeptide chain give rise to alpha helices, beta strands (which align to form beta sheets) or other types of coils. This is the first folding level of protein conformation.Tumor Cells, Cultured: Cells grown in vitro from neoplastic tissue. If they can be established as a TUMOR CELL LINE, they can be propagated in cell culture indefinitely.Dose-Response Relationship, Drug: The relationship between the dose of an administered drug and the response of the organism to the drug.Receptors, Notch: A family of conserved cell surface receptors that contain EPIDERMAL GROWTH FACTOR repeats in their extracellular domain and ANKYRIN repeats in their cytoplasmic domains. The cytoplasmic domain of notch receptors is released upon ligand binding and translocates to the CELL NUCLEUS where it acts as transcription factor.Models, Chemical: Theoretical representations that simulate the behavior or activity of chemical processes or phenomena; includes the use of mathematical equations, computers, and other electronic equipment.Models, Biological: Theoretical representations that simulate the behavior or activity of biological processes or diseases. For disease models in living animals, DISEASE MODELS, ANIMAL is available. Biological models include the use of mathematical equations, computers, and other electronic equipment.Gene Expression Regulation: Any of the processes by which nuclear, cytoplasmic, or intercellular factors influence the differential control (induction or repression) of gene action at the level of transcription or translation.Cell Differentiation: Progressive restriction of the developmental potential and increasing specialization of function that leads to the formation of specialized cells, tissues, and organs.COS Cells: CELL LINES derived from the CV-1 cell line by transformation with a replication origin defective mutant of SV40 VIRUS, which codes for wild type large T antigen (ANTIGENS, POLYOMAVIRUS TRANSFORMING). They are used for transfection and cloning. (The CV-1 cell line was derived from the kidney of an adult male African green monkey (CERCOPITHECUS AETHIOPS).)Heme: The color-furnishing portion of hemoglobin. It is found free in tissues and as the prosthetic group in many hemeproteins.Receptors, Tumor Necrosis Factor: Cell surface receptors that bind TUMOR NECROSIS FACTORS and trigger changes which influence the behavior of cells.Peptide Fragments: Partial proteins formed by partial hydrolysis of complete proteins or generated through PROTEIN ENGINEERING techniques.Apoptosis Regulatory Proteins: A large group of proteins that control APOPTOSIS. This family of proteins includes many ONCOGENE PROTEINS as well as a wide variety of classes of INTRACELLULAR SIGNALING PEPTIDES AND PROTEINS such as CASPASES.Tumor Necrosis Factor Ligand Superfamily Member 13: A member of tumor necrosis factor superfamily found on MACROPHAGES; DENDRITIC CELLS and T-LYMPHOCYTES. It occurs as transmembrane protein that can be cleaved to release a secreted form that specifically binds to TRANSMEMBRANE ACTIVATOR AND CAML INTERACTOR PROTEIN; and B CELL MATURATION ANTIGEN.Magnetic Resonance Spectroscopy: Spectroscopic method of measuring the magnetic moment of elementary particles such as atomic nuclei, protons or electrons. It is employed in clinical applications such as NMR Tomography (MAGNETIC RESONANCE IMAGING).Antigens, CD40: A member of the tumor necrosis factor receptor superfamily with specificity for CD40 LIGAND. It is found on mature B-LYMPHOCYTES and some EPITHELIAL CELLS, lymphoid DENDRITIC CELLS. Evidence suggests that CD40-dependent activation of B-cells is important for generation of memory B-cells within the germinal centers. Mutations of the gene for CD40 antigen result in HYPER-IGM IMMUNODEFICIENCY SYNDROME, TYPE 3. Signaling of the receptor occurs through its association with TNF RECEPTOR-ASSOCIATED FACTORS.NK Cell Lectin-Like Receptor Subfamily K: An activating NK cell lectin-like receptor subfamily that regulates immune responses to INFECTION and NEOPLASMS. Members of this subfamily generally occur as homodimers.Endocytosis: Cellular uptake of extracellular materials within membrane-limited vacuoles or microvesicles. ENDOSOMES play a central role in endocytosis.Reverse Transcriptase Polymerase Chain Reaction: A variation of the PCR technique in which cDNA is made from RNA via reverse transcription. The resultant cDNA is then amplified using standard PCR protocols.Up-Regulation: A positive regulatory effect on physiological processes at the molecular, cellular, or systemic level. At the molecular level, the major regulatory sites include membrane receptors, genes (GENE EXPRESSION REGULATION), mRNAs (RNA, MESSENGER), and proteins.Allosteric Regulation: The modification of the reactivity of ENZYMES by the binding of effectors to sites (ALLOSTERIC SITES) on the enzymes other than the substrate BINDING SITES.Tumor Necrosis Factors: A family of proteins that were originally identified by their ability to cause NECROSIS of NEOPLASMS. Their necrotic effect on cells is mediated through TUMOR NECROSIS FACTOR RECEPTORS which induce APOPTOSIS.Mice, Inbred BALB CCarbon Monoxide: Carbon monoxide (CO). A poisonous colorless, odorless, tasteless gas. It combines with hemoglobin to form carboxyhemoglobin, which has no oxygen carrying capacity. The resultant oxygen deprivation causes headache, dizziness, decreased pulse and respiratory rates, unconsciousness, and death. (From Merck Index, 11th ed)Tumor Necrosis Factor-alpha: Serum glycoprotein produced by activated MACROPHAGES and other mammalian MONONUCLEAR LEUKOCYTES. It has necrotizing activity against tumor cell lines and increases ability to reject tumor transplants. Also known as TNF-alpha, it is only 30% homologous to TNF-beta (LYMPHOTOXIN), but they share TNF RECEPTORS.Dendritic Cells: Specialized cells of the hematopoietic system that have branch-like extensions. They are found throughout the lymphatic system, and in non-lymphoid tissues such as SKIN and the epithelia of the intestinal, respiratory, and reproductive tracts. They trap and process ANTIGENS, and present them to T-CELLS, thereby stimulating CELL-MEDIATED IMMUNITY. They are different from the non-hematopoietic FOLLICULAR DENDRITIC CELLS, which have a similar morphology and immune system function, but with respect to humoral immunity (ANTIBODY PRODUCTION).Phosphorylation: The introduction of a phosphoryl group into a compound through the formation of an ester bond between the compound and a phosphorus moiety.Toll-Like Receptors: A family of pattern recognition receptors characterized by an extracellular leucine-rich domain and a cytoplasmic domain that share homology with the INTERLEUKIN 1 RECEPTOR and the DROSOPHILA toll protein. Following pathogen recognition, toll-like receptors recruit and activate a variety of SIGNAL TRANSDUCING ADAPTOR PROTEINS.Transcription Factors: Endogenous substances, usually proteins, which are effective in the initiation, stimulation, or termination of the genetic transcription process.Cell Movement: The movement of cells from one location to another. Distinguish from CYTOKINESIS which is the process of dividing the CYTOPLASM of a cell.Coordination Complexes: Neutral or negatively charged ligands bonded to metal cations or neutral atoms. The number of ligand atoms to which the metal center is directly bonded is the metal cation's coordination number, and this number is always greater than the regular valence or oxidation number of the metal. A coordination complex can be negative, neutral, or positively charged.Blotting, Western: Identification of proteins or peptides that have been electrophoretically separated by blot transferring from the electrophoresis gel to strips of nitrocellulose paper, followed by labeling with antibody probes.Receptor Activator of Nuclear Factor-kappa B: A tumor necrosis factor receptor family member that is specific for RANK LIGAND and plays a role in bone homeostasis by regulating osteoclastogenesis. It is also expressed on DENDRITIC CELLS where it plays a role in regulating dendritic cell survival. Signaling by the activated receptor occurs through its association with TNF RECEPTOR-ASSOCIATED FACTORS.Organometallic Compounds: A class of compounds of the type R-M, where a C atom is joined directly to any other element except H, C, N, O, F, Cl, Br, I, or At. (Grant & Hackh's Chemical Dictionary, 5th ed)Integrins: A family of transmembrane glycoproteins (MEMBRANE GLYCOPROTEINS) consisting of noncovalent heterodimers. They interact with a wide variety of ligands including EXTRACELLULAR MATRIX PROTEINS; COMPLEMENT, and other cells, while their intracellular domains interact with the CYTOSKELETON. The integrins consist of at least three identified families: the cytoadhesin receptors(RECEPTORS, CYTOADHESIN), the leukocyte adhesion receptors (RECEPTORS, LEUKOCYTE ADHESION), and the VERY LATE ANTIGEN RECEPTORS. Each family contains a common beta-subunit (INTEGRIN BETA CHAINS) combined with one or more distinct alpha-subunits (INTEGRIN ALPHA CHAINS). These receptors participate in cell-matrix and cell-cell adhesion in many physiologically important processes, including embryological development; HEMOSTASIS; THROMBOSIS; WOUND HEALING; immune and nonimmune defense mechanisms; and oncogenic transformation.Cricetulus: A genus of the family Muridae consisting of eleven species. C. migratorius, the grey or Armenian hamster, and C. griseus, the Chinese hamster, are the two species used in biomedical research.Stereoisomerism: The phenomenon whereby compounds whose molecules have the same number and kind of atoms and the same atomic arrangement, but differ in their spatial relationships. (From McGraw-Hill Dictionary of Scientific and Technical Terms, 5th ed)Gene Expression: The phenotypic manifestation of a gene or genes by the processes of GENETIC TRANSCRIPTION and GENETIC TRANSLATION.Cloning, Molecular: The insertion of recombinant DNA molecules from prokaryotic and/or eukaryotic sources into a replicating vehicle, such as a plasmid or virus vector, and the introduction of the resultant hybrid molecules into recipient cells without altering the viability of those cells.Killer Cells, Natural: Bone marrow-derived lymphocytes that possess cytotoxic properties, classically directed against transformed and virus-infected cells. Unlike T CELLS; and B CELLS; NK CELLS are not antigen specific. The cytotoxicity of natural killer cells is determined by the collective signaling of an array of inhibitory and stimulatory CELL SURFACE RECEPTORS. A subset of T-LYMPHOCYTES referred to as NATURAL KILLER T CELLS shares some of the properties of this cell type.Cytokines: Non-antibody proteins secreted by inflammatory leukocytes and some non-leukocytic cells, that act as intercellular mediators. They differ from classical hormones in that they are produced by a number of tissue or cell types rather than by specialized glands. They generally act locally in a paracrine or autocrine rather than endocrine manner.Mice, Transgenic: Laboratory mice that have been produced from a genetically manipulated EGG or EMBRYO, MAMMALIAN.Receptor Protein-Tyrosine Kinases: A class of cellular receptors that have an intrinsic PROTEIN-TYROSINE KINASE activity.Sequence Alignment: The arrangement of two or more amino acid or base sequences from an organism or organisms in such a way as to align areas of the sequences sharing common properties. The degree of relatedness or homology between the sequences is predicted computationally or statistically based on weights assigned to the elements aligned between the sequences. This in turn can serve as a potential indicator of the genetic relatedness between the organisms.Surface Plasmon Resonance: A biosensing technique in which biomolecules capable of binding to specific analytes or ligands are first immobilized on one side of a metallic film. Light is then focused on the opposite side of the film to excite the surface plasmons, that is, the oscillations of free electrons propagating along the film's surface. The refractive index of light reflecting off this surface is measured. When the immobilized biomolecules are bound by their ligands, an alteration in surface plasmons on the opposite side of the film is created which is directly proportional to the change in bound, or adsorbed, mass. Binding is measured by changes in the refractive index. The technique is used to study biomolecular interactions, such as antigen-antibody binding.Solubility: The ability of a substance to be dissolved, i.e. to form a solution with another substance. (From McGraw-Hill Dictionary of Scientific and Technical Terms, 6th ed)DNA Primers: Short sequences (generally about 10 base pairs) of DNA that are complementary to sequences of messenger RNA and allow reverse transcriptases to start copying the adjacent sequences of mRNA. Primers are used extensively in genetic and molecular biology techniques.Myoglobin: A conjugated protein which is the oxygen-transporting pigment of muscle. It is made up of one globin polypeptide chain and one heme group.Glycoproteins: Conjugated protein-carbohydrate compounds including mucins, mucoid, and amyloid glycoproteins.Amino Acid Substitution: The naturally occurring or experimentally induced replacement of one or more AMINO ACIDS in a protein with another. If a functionally equivalent amino acid is substituted, the protein may retain wild-type activity. Substitution may also diminish, enhance, or eliminate protein function. Experimentally induced substitution is often used to study enzyme activities and binding site properties.Time Factors: Elements of limited time intervals, contributing to particular results or situations.Molecular Docking Simulation: A computer simulation technique that is used to model the interaction between two molecules. Typically the docking simulation measures the interactions of a small molecule or ligand with a part of a larger molecule such as a protein.Cell Proliferation: All of the processes involved in increasing CELL NUMBER including CELL DIVISION.Receptors, Chemokine: Cell surface glycoproteins that bind to chemokines and thus mediate the migration of pro-inflammatory molecules. The receptors are members of the seven-transmembrane G protein-coupled receptor family. Like the CHEMOKINES themselves, the receptors can be divided into at least three structural branches: CR, CCR, and CXCR, according to variations in a shared cysteine motif.Histidine: An essential amino acid that is required for the production of HISTAMINE.Thiazolidinediones: THIAZOLES with two keto oxygens. Members are insulin-sensitizing agents which overcome INSULIN RESISTANCE by activation of the peroxisome proliferator activated receptor gamma (PPAR-gamma).Osteoprotegerin: A secreted member of the TNF receptor superfamily that negatively regulates osteoclastogenesis. It is a soluble decoy receptor of RANK LIGAND that inhibits both CELL DIFFERENTIATION and function of OSTEOCLASTS by inhibiting the interaction between RANK LIGAND and RECEPTOR ACTIVATOR OF NUCLEAR FACTOR-KAPPA B.L-Selectin: Cell adhesion molecule and CD antigen that serves as a homing receptor for lymphocytes to lymph node high endothelial venules.Jurkat Cells: A CELL LINE derived from human T-CELL LEUKEMIA and used to determine the mechanism of differential susceptibility to anti-cancer drugs and radiation.HEK293 Cells: A cell line generated from human embryonic kidney cells that were transformed with human adenovirus type 5.Phosphines: Inorganic or organic compounds derived from phosphine (PH3) by the replacement of H atoms. (From Grant & Hackh's Chemical Dictionary, 5th ed)Down-Regulation: A negative regulatory effect on physiological processes at the molecular, cellular, or systemic level. At the molecular level, the major regulatory sites include membrane receptors, genes (GENE EXPRESSION REGULATION), mRNAs (RNA, MESSENGER), and proteins.DNA: A deoxyribonucleotide polymer that is the primary genetic material of all cells. Eukaryotic and prokaryotic organisms normally contain DNA in a double-stranded state, yet several important biological processes transiently involve single-stranded regions. DNA, which consists of a polysugar-phosphate backbone possessing projections of purines (adenine and guanine) and pyrimidines (thymine and cytosine), forms a double helix that is held together by hydrogen bonds between these purines and pyrimidines (adenine to thymine and guanine to cytosine).Chemokines, CXC: Group of chemokines with paired cysteines separated by a different amino acid. CXC chemokines are chemoattractants for neutrophils but not monocytes.Cell Adhesion Molecules: Surface ligands, usually glycoproteins, that mediate cell-to-cell adhesion. Their functions include the assembly and interconnection of various vertebrate systems, as well as maintenance of tissue integration, wound healing, morphogenic movements, cellular migrations, and metastasis.Peptide Library: A collection of cloned peptides, or chemically synthesized peptides, frequently consisting of all possible combinations of amino acids making up an n-amino acid peptide.Substrate Specificity: A characteristic feature of enzyme activity in relation to the kind of substrate on which the enzyme or catalytic molecule reacts.Catalysis: The facilitation of a chemical reaction by material (catalyst) that is not consumed by the reaction.Hemeproteins: Proteins that contain an iron-porphyrin, or heme, prosthetic group resembling that of hemoglobin. (From Lehninger, Principles of Biochemistry, 1982, p480)Stem Cell Factor: A hematopoietic growth factor and the ligand of the cell surface c-kit protein (PROTO-ONCOGENE PROTEINS C-KIT). It is expressed during embryogenesis and is a growth factor for a number of cell types including the MAST CELLS and the MELANOCYTES in addition to the HEMATOPOIETIC STEM CELLS.Intracellular Signaling Peptides and Proteins: Proteins and peptides that are involved in SIGNAL TRANSDUCTION within the cell. Included here are peptides and proteins that regulate the activity of TRANSCRIPTION FACTORS and cellular processes in response to signals from CELL SURFACE RECEPTORS. Intracellular signaling peptide and proteins may be part of an enzymatic signaling cascade or act through binding to and modifying the action of other signaling factors.Hydrogen-Ion Concentration: The normality of a solution with respect to HYDROGEN ions; H+. It is related to acidity measurements in most cases by pH = log 1/2[1/(H+)], where (H+) is the hydrogen ion concentration in gram equivalents per liter of solution. (McGraw-Hill Dictionary of Scientific and Technical Terms, 6th ed)P-Selectin: Cell adhesion molecule and CD antigen that mediates the adhesion of neutrophils and monocytes to activated platelets and endothelial cells.Immunohistochemistry: Histochemical localization of immunoreactive substances using labeled antibodies as reagents.Receptor, Epidermal Growth Factor: A cell surface receptor involved in regulation of cell growth and differentiation. It is specific for EPIDERMAL GROWTH FACTOR and EGF-related peptides including TRANSFORMING GROWTH FACTOR ALPHA; AMPHIREGULIN; and HEPARIN-BINDING EGF-LIKE GROWTH FACTOR. The binding of ligand to the receptor causes activation of its intrinsic tyrosine kinase activity and rapid internalization of the receptor-ligand complex into the cell.Molecular Dynamics Simulation: A computer simulation developed to study the motion of molecules over a period of time.Amino Acid Motifs: Commonly observed structural components of proteins formed by simple combinations of adjacent secondary structures. A commonly observed structure may be composed of a CONSERVED SEQUENCE which can be represented by a CONSENSUS SEQUENCE.Electron Spin Resonance Spectroscopy: A technique applicable to the wide variety of substances which exhibit paramagnetism because of the magnetic moments of unpaired electrons. The spectra are useful for detection and identification, for determination of electron structure, for study of interactions between molecules, and for measurement of nuclear spins and moments. (From McGraw-Hill Encyclopedia of Science and Technology, 7th edition) Electron nuclear double resonance (ENDOR) spectroscopy is a variant of the technique which can give enhanced resolution. Electron spin resonance analysis can now be used in vivo, including imaging applications such as MAGNETIC RESONANCE IMAGING.DNA, Complementary: Single-stranded complementary DNA synthesized from an RNA template by the action of RNA-dependent DNA polymerase. cDNA (i.e., complementary DNA, not circular DNA, not C-DNA) is used in a variety of molecular cloning experiments as well as serving as a specific hybridization probe.Lectins, C-Type: A class of animal lectins that bind to carbohydrate in a calcium-dependent manner. They share a common carbohydrate-binding domain that is structurally distinct from other classes of lectins.Enzyme Activation: Conversion of an inactive form of an enzyme to one possessing metabolic activity. It includes 1, activation by ions (activators); 2, activation by cofactors (coenzymes); and 3, conversion of an enzyme precursor (proenzyme or zymogen) to an active enzyme.PPAR gamma: A nuclear transcription factor. Heterodimerization with RETINOID X RECEPTOR ALPHA is important in regulation of GLUCOSE metabolism and CELL GROWTH PROCESSES. It is a target of THIAZOLIDINEDIONES for control of DIABETES MELLITUS.Receptors, CXCR3: CXCR receptors that are expressed on the surface of a number of cell types, including T-LYMPHOCYTES; NK CELLS; DENDRITIC CELLS; and a subset of B-LYMPHOCYTES. The receptors are activated by CHEMOKINE CXCL9; CHEMOKINE CXCL10; and CHEMOKINE CXCL11.Escherichia coli: A species of gram-negative, facultatively anaerobic, rod-shaped bacteria (GRAM-NEGATIVE FACULTATIVELY ANAEROBIC RODS) commonly found in the lower part of the intestine of warm-blooded animals. It is usually nonpathogenic, but some strains are known to produce DIARRHEA and pyogenic infections. Pathogenic strains (virotypes) are classified by their specific pathogenic mechanisms such as toxins (ENTEROTOXIGENIC ESCHERICHIA COLI), etc.Retinoid X Receptors: A subtype of RETINOIC ACID RECEPTORS that are specific for 9-cis-retinoic acid which function as nuclear TRANSCRIPTION FACTORS that regulate multiple signaling pathways.Cysteine: A thiol-containing non-essential amino acid that is oxidized to form CYSTINE.Nuclear Magnetic Resonance, Biomolecular: NMR spectroscopy on small- to medium-size biological macromolecules. This is often used for structural investigation of proteins and nucleic acids, and often involves more than one isotope.Spectrometry, Fluorescence: Measurement of the intensity and quality of fluorescence.Cell Division: The fission of a CELL. It includes CYTOKINESIS, when the CYTOPLASM of a cell is divided, and CELL NUCLEUS DIVISION.Macrophages: The relatively long-lived phagocytic cell of mammalian tissues that are derived from blood MONOCYTES. Main types are PERITONEAL MACROPHAGES; ALVEOLAR MACROPHAGES; HISTIOCYTES; KUPFFER CELLS of the liver; and OSTEOCLASTS. They may further differentiate within chronic inflammatory lesions to EPITHELIOID CELLS or may fuse to form FOREIGN BODY GIANT CELLS or LANGHANS GIANT CELLS. (from The Dictionary of Cell Biology, Lackie and Dow, 3rd ed.)Cattle: Domesticated bovine animals of the genus Bos, usually kept on a farm or ranch and used for the production of meat or dairy products or for heavy labor.Bacterial Proteins: Proteins found in any species of bacterium.B-Lymphocytes: Lymphoid cells concerned with humoral immunity. They are short-lived cells resembling bursa-derived lymphocytes of birds in their production of immunoglobulin upon appropriate stimulation.Toll-Like Receptor 2: A pattern recognition receptor that forms heterodimers with other TOLL-LIKE RECEPTORS. It interacts with multiple ligands including PEPTIDOGLYCAN, bacterial LIPOPROTEINS, lipoarabinomannan, and a variety of PORINS.Inducible T-Cell Co-Stimulator Ligand: A B7 antigen that binds specifically to INDUCIBLE T-CELL CO-STIMULATOR PROTEIN on T-CELLS. It provides a costimulatory signal for T-cell proliferation and cytokine secretion.Receptors, Antigen, T-Cell: Molecules on the surface of T-lymphocytes that recognize and combine with antigens. The receptors are non-covalently associated with a complex of several polypeptides collectively called CD3 antigens (ANTIGENS, CD3). Recognition of foreign antigen and the major histocompatibility complex is accomplished by a single heterodimeric antigen-receptor structure, composed of either alpha-beta (RECEPTORS, ANTIGEN, T-CELL, ALPHA-BETA) or gamma-delta (RECEPTORS, ANTIGEN, T-CELL, GAMMA-DELTA) chains.Oxidation-Reduction: A chemical reaction in which an electron is transferred from one molecule to another. The electron-donating molecule is the reducing agent or reductant; the electron-accepting molecule is the oxidizing agent or oxidant. Reducing and oxidizing agents function as conjugate reductant-oxidant pairs or redox pairs (Lehninger, Principles of Biochemistry, 1982, p471).Palladium: A chemical element having an atomic weight of 106.4, atomic number of 46, and the symbol Pd. It is a white, ductile metal resembling platinum, and following it in abundance and importance of applications. It is used in dentistry in the form of gold, silver, and copper alloys.Receptors, Retinoic Acid: Proteins in the nucleus or cytoplasm that specifically bind RETINOIC ACID or RETINOL and trigger changes in the behavior of cells. Retinoic acid receptors, like steroid receptors, are ligand-activated transcription regulators. Several types have been recognized.Asialoglycoproteins: Endogenous glycoproteins from which SIALIC ACID has been removed by the action of sialidases. They bind tightly to the ASIALOGLYCOPROTEIN RECEPTOR which is located on hepatocyte plasma membranes. After internalization by adsorptive ENDOCYTOSIS they are delivered to LYSOSOMES for degradation. Therefore receptor-mediated clearance of asialoglycoproteins is an important aspect of the turnover of plasma glycoproteins. They are elevated in serum of patients with HEPATIC CIRRHOSIS or HEPATITIS.Receptors, Natural Killer Cell: Receptors that are specifically found on the surface of NATURAL KILLER CELLS. They play an important role in regulating the cellular component of INNATE IMMUNITY.CD4-Positive T-Lymphocytes: A critical subpopulation of T-lymphocytes involved in the induction of most immunological functions. The HIV virus has selective tropism for the T4 cell which expresses the CD4 phenotypic marker, a receptor for HIV. In fact, the key element in the profound immunosuppression seen in HIV infection is the depletion of this subset of T-lymphocytes.Epidermal Growth Factor: A 6-kDa polypeptide growth factor initially discovered in mouse submaxillary glands. Human epidermal growth factor was originally isolated from urine based on its ability to inhibit gastric secretion and called urogastrone. Epidermal growth factor exerts a wide variety of biological effects including the promotion of proliferation and differentiation of mesenchymal and EPITHELIAL CELLS. It is synthesized as a transmembrane protein which can be cleaved to release a soluble active form.Lectins: Proteins that share the common characteristic of binding to carbohydrates. Some ANTIBODIES and carbohydrate-metabolizing proteins (ENZYMES) also bind to carbohydrates, however they are not considered lectins. PLANT LECTINS are carbohydrate-binding proteins that have been primarily identified by their hemagglutinating activity (HEMAGGLUTININS). However, a variety of lectins occur in animal species where they serve diverse array of functions through specific carbohydrate recognition.Selectins: Transmembrane proteins consisting of a lectin-like domain, an epidermal growth factor-like domain, and a variable number of domains that are homologous to complement regulatory proteins. They are important cell adhesion molecules which help LEUKOCYTES attach to VASCULAR ENDOTHELIUM.Calorimetry: The measurement of the quantity of heat involved in various processes, such as chemical reactions, changes of state, and formations of solutions, or in the determination of the heat capacities of substances. The fundamental unit of measurement is the joule or the calorie (4.184 joules). (McGraw-Hill Dictionary of Scientific and Technical Terms, 4th ed)Protein Multimerization: The assembly of the QUATERNARY PROTEIN STRUCTURE of multimeric proteins (MULTIPROTEIN COMPLEXES) from their composite PROTEIN SUBUNITS.E-Selectin: Cell adhesion molecule and CD antigen that mediates neutrophil, monocyte, and memory T-cell adhesion to cytokine-activated endothelial cells. E-selectin recognizes sialylated carbohydrate groups related to the Lewis X or Lewis A family.Computer Simulation: Computer-based representation of physical systems and phenomena such as chemical processes.Circular Dichroism: A change from planar to elliptic polarization when an initially plane-polarized light wave traverses an optically active medium. (McGraw-Hill Dictionary of Scientific and Technical Terms, 4th ed)Ephrin-B1: A transmembrane domain containing ephrin that is specific for EPHB1 RECEPTOR; EPHB2 RECEPTOR and EPHB3 RECEPTOR. It is widely expressed in a variety of developing and adult tissues.Receptors, Eph Family: A large family of receptor protein-tyrosine kinases that are structurally-related. The name of this family of proteins derives from original protein Eph (now called the EPHA1 RECEPTOR), which was named after the cell line it was first discovered in: Erythropoietin-Producing human Hepatocellular carcinoma cell line. Members of this family have been implicated in regulation of cell-cell interactions involved in nervous system patterning and development.Receptors, Aryl Hydrocarbon: Cytoplasmic proteins that bind certain aryl hydrocarbons, translocate to the nucleus, and activate transcription of particular DNA segments. AH receptors are identified by their high-affinity binding to several carcinogenic or teratogenic environmental chemicals including polycyclic aromatic hydrocarbons found in cigarette smoke and smog, heterocyclic amines found in cooked foods, and halogenated hydrocarbons including dioxins and polychlorinated biphenyls. No endogenous ligand has been identified, but an unknown natural messenger with a role in cell differentiation and development is suspected.Aptamers, Nucleotide: Nucleotide sequences, generated by iterative rounds of SELEX APTAMER TECHNIQUE, that bind to a target molecule specifically and with high affinity.Allosteric Site: A site on an enzyme which upon binding of a modulator, causes the enzyme to undergo a conformational change that may alter its catalytic or binding properties.Ephrin-B2: A transmembrane domain containing ephrin that binds with high affinity to EPHB1 RECEPTOR; EPHB3 RECEPTOR; and EPHB4 RECEPTOR. Expression of ephrin-B2 occurs in a variety of adult tissues. During embryogenesis, high levels of ephrin-B2 is seen in the PROSENCEPHALON; RHOMBENCEPHALON; developing SOMITES; LIMB BUD; and bronchial arches.Protein Structure, Quaternary: The characteristic 3-dimensional shape and arrangement of multimeric proteins (aggregates of more than one polypeptide chain).ThiazolesReceptors, Opioid: Cell membrane proteins that bind opioids and trigger intracellular changes which influence the behavior of cells. The endogenous ligands for opioid receptors in mammals include three families of peptides, the enkephalins, endorphins, and dynorphins. The receptor classes include mu, delta, and kappa receptors. Sigma receptors bind several psychoactive substances, including certain opioids, but their endogenous ligands are not known.Osteoclasts: A large multinuclear cell associated with the BONE RESORPTION. An odontoclast, also called cementoclast, is cytomorphologically the same as an osteoclast and is involved in CEMENTUM resorption.Iodine Radioisotopes: Unstable isotopes of iodine that decay or disintegrate emitting radiation. I atoms with atomic weights 117-139, except I 127, are radioactive iodine isotopes.Receptor, Notch1: A notch receptor that interacts with a variety of ligands and regulates SIGNAL TRANSDUCTION PATHWAYS for multiple cellular processes. It is widely expressed during EMBRYOGENESIS and is essential for EMBRYONIC DEVELOPMENT.Chemokines, CC: Group of chemokines with adjacent cysteines that are chemoattractants for lymphocytes, monocytes, eosinophils, basophils but not neutrophils.Chromatography, Affinity: A chromatographic technique that utilizes the ability of biological molecules to bind to certain ligands specifically and reversibly. It is used in protein biochemistry. (McGraw-Hill Dictionary of Scientific and Technical Terms, 4th ed)Cercopithecus aethiops: A species of CERCOPITHECUS containing three subspecies: C. tantalus, C. pygerythrus, and C. sabeus. They are found in the forests and savannah of Africa. The African green monkey (C. pygerythrus) is the natural host of SIMIAN IMMUNODEFICIENCY VIRUS and is used in AIDS research.Cell Survival: The span of viability of a cell characterized by the capacity to perform certain functions such as metabolism, growth, reproduction, some form of responsiveness, and adaptability.Antibodies: Immunoglobulin molecules having a specific amino acid sequence by virtue of which they interact only with the ANTIGEN (or a very similar shape) that induced their synthesis in cells of the lymphoid series (especially PLASMA CELLS).Drosophila Proteins: Proteins that originate from insect species belonging to the genus DROSOPHILA. The proteins from the most intensely studied species of Drosophila, DROSOPHILA MELANOGASTER, are the subject of much interest in the area of MORPHOGENESIS and development.Antigens, CD274: An inhibitory B7 antigen that has specificity for the T-CELL receptor PROGRAMMED CELL DEATH 1 PROTEIN. CD274 antigen provides negative signals that control and inhibit T-cell responses and is found at higher than normal levels on tumor cells, suggesting its potential role in TUMOR IMMUNE EVASION.Calcium: A basic element found in nearly all organized tissues. It is a member of the alkaline earth family of metals with the atomic symbol Ca, atomic number 20, and atomic weight 40. Calcium is the most abundant mineral in the body and combines with phosphorus to form calcium phosphate in the bones and teeth. It is essential for the normal functioning of nerves and muscles and plays a role in blood coagulation (as factor IV) and in many enzymatic processes.Monocytes: Large, phagocytic mononuclear leukocytes produced in the vertebrate BONE MARROW and released into the BLOOD; contain a large, oval or somewhat indented nucleus surrounded by voluminous cytoplasm and numerous organelles.Spectrum Analysis, Raman: Analysis of the intensity of Raman scattering of monochromatic light as a function of frequency of the scattered light.Spectrophotometry: The art or process of comparing photometrically the relative intensities of the light in different parts of the spectrum.Spectrum Analysis: The measurement of the amplitude of the components of a complex waveform throughout the frequency range of the waveform. (McGraw-Hill Dictionary of Scientific and Technical Terms, 6th ed)Copper: A heavy metal trace element with the atomic symbol Cu, atomic number 29, and atomic weight 63.55.Transcription, Genetic: The biosynthesis of RNA carried out on a template of DNA. The biosynthesis of DNA from an RNA template is called REVERSE TRANSCRIPTION.Coculture Techniques: A technique of culturing mixed cell types in vitro to allow their synergistic or antagonistic interactions, such as on CELL DIFFERENTIATION or APOPTOSIS. Coculture can be of different types of cells, tissues, or organs from normal or disease states.
An antibody's binding affinity to its target is extraordinarily high.. Many ligand transport proteins bind particular small ... The canonical example of a ligand-binding protein is haemoglobin, which transports oxygen from the lungs to other organs and ... These proteins must have a high binding affinity when their ligand is present in high concentrations, but must also release the ... Proteins can bind to other proteins as well as to small-molecule substrates. When proteins bind specifically to other copies of ...
Binding for ligands other than oxygen. Besides the oxygen ligand, which binds to hemoglobin in a cooperative manner, ... Protons bind at various places on the protein, while carbon dioxide binds at the α-amino group. Carbon dioxide binds to ... completing the octahedral group of six ligands. Oxygen binds in an "end-on bent" geometry where one oxygen atom binds to Fe and ... NO binds reversibly to a specific cysteine residue in globin; the binding depends on the state (R or T) of the hemoglobin. The ...
Upon binding, the receptor often undergoes a conformational change and may bind further signaling ligands in order to activate ... Intrinsic transcriptional involves the three following domains: transcription-activating, DNA-binding, and ligand-binding. ... "Ligand Binding Domain". www.ks.uiuc.edu. Retrieved 2017-04-06. "Cell signalling". OpenLearn. Retrieved 2017-04-06. Stockert, R ... Problems with nuclear receptor binding as a result of shortages of ligand or receptors can have drastic effects on the cell. ...
... wherein ligands bind externally to the membrane, the ligands of GPCRs typically bind within the transmembrane domain. However, ... Ligand bindingEdit. GPCRs include one or more receptors for the following ligands: sensory signal mediators (e.g., light and ... Ligands may also bind elsewhere, however, as is the case for bulkier ligands (e.g., proteins or large peptides), which instead ... The binding of ligands to the receptor may shift the equilibrium toward the active receptor states. Three types of ligands ...
Identification by ligand binding". The Journal of Biological Chemistry. 257 (19): 11416-23. PMID 6288684. Manning, DR; Gilman, ... In 1980, he succeeded in identifying and isolating the new protein, which he named G protein, as it specifically bind GTP ... Gilman, AG (1970). "A protein binding assay for adenosine 3':5'-cyclic monophosphate". Proceedings of the National Academy of ... A family of structurally homologous guanine nucleotide-binding proteins". The Journal of Biological Chemistry. 258 (11): 7059- ...
Plow, Edward F.; Haas, Thomas A.; Zhang, Li; Loftus, Joseph; Smith, Jeffrey W. (2000-07-21). "Ligand Binding to Integrins". ... Fluciclatide, an (18)F-labeled small peptide that binds to integrin αVβ3 and integrin αVβ5, is being tested as a tool to ... The RGD motif is presented in a slightly different ways in different proteins, making it possible for the many RGD-binding ... Pierschbacher, M. D.; Ruoslahti, E. (1987-12-25). "Influence of stereochemistry of the sequence Arg-Gly-Asp-Xaa on binding ...
Identification by ligand binding. J Biol Chem. 1982 Oct 10;257(19):11416-23. PMID 6288684. ... A family of structurally homologous guanine nucleotide-binding proteins. J Biol Chem. 1983 Jun 10;258(11):7059-63. PMID 6304074 ...
Vaughan RA, Kuhar MJ (1996). "Dopamine transporter ligand binding domains. Structural and functional properties revealed by ... sodium ions must bind to the extracellular domain of the transporter before dopamine can bind. Once dopamine binds, the protein ... Once inside, it binds to TAAR1 or enters synaptic vesicles through VMAT2. When amphetamine binds to TAAR1, it reduces the ... The human dopamine transporter (hDAT) contains a high affinity extracellular zinc binding site which, upon zinc binding, ...
Cortajarena AL, Regan L (May 2006). "Ligand binding by TPR domains". Protein Science. 15 (5): 1193-8. doi:10.1110/ps.062092506 ... of which the concave face is usually involved in ligand binding. In terms of sequence, a TPR possesses a mixture of small and ... The binding of the Rac GTPase is a key step into the assembly of the complex and the TPRs in the phox unit mediate the assembly ... Its TPR1 domain is known to recognize the C-terminal of Hsp70 while TPR2 binds to the C-terminal of Hsp90. Both C-terminal ...
"The Binding of Benzoarylsulfonamide Ligands to Human Carbonic Anhydrase is Insensitive to Formal Fluorination of the Ligand". ... "The Binding of Benzoarylsulfonamide Ligands to Human Carbonic Anhydrase is Insensitive to Formal Fluorination of the Ligand". ... Phys., 2011, 13, 10136-10146 Binding of Small-Molecule Ligands to Proteins: "What You See" Is Not Always "What You Get", ... "Water Networks Contribute to Enthalpy/Entropy Compensation in Protein-Ligand Binding". J. Am. Chem. Soc. 135 (41): 15579-15584 ...
Alter substrate or ligand binding. Circularly permuting a protein can result in the loss of substrate binding, but can ... These are membrane-bound enzymes that catalyze the transfer of a hydride ion between NAD(H) and NADP(H) in a reaction that is ... occasionally lead to novel ligand binding activity or altered substrate specificity. Improve thermostability. Making proteins ... Hatefi, Y.; Yamaguchi, M. (1996). "Nicotinamide nucleotide transhydrogenase: A model for utilization of substrate binding ...
Binding of antagonist ligands to nuclear receptors in contrast induces a conformation of the receptor that preferentially binds ... The N-terminal (A/B), DNA-binding (C), and ligand binding (E) domains are independently well folded and structurally stable ... Thus, this provided an example of how an ancestral ligand-dependent receptor could lose its ability to bind ligands. A ... In the absence of ligand, type II nuclear receptors are often complexed with corepressor proteins. Ligand binding to the ...
"Mapping ligand binding domains in chimeric fibroblast growth factor receptor molecules. Multiple regions determine ligand ... "Insights into the molecular basis for fibroblast growth factor receptor autoinhibition and ligand-binding promiscuity". ... This particular family member binds both acidic and basic fibroblast growth factor and plays a role in bone development and ... FGFR family members differ from one another in their ligand affinities and tissue distribution. A full-length representative ...
"Mapping ligand binding domains in chimeric fibroblast growth factor receptor molecules. Multiple regions determine ligand ... Naruo K, Seko C, Kuroshima K, Matsutani E, Sasada R, Kondo T, Kurokawa T (February 1993). "Novel secretory heparin-binding ... and heparin-binding interfaces". Acta Crystallographica Section D. 57 (Pt 3): 378-84. doi:10.1107/S0907444900020813. PMID ... "Human RPE cells express the FGFR2IIIc and FGFR3IIIc splice variants and FGF9 as a potential high affinity ligand". Experimental ...
"Mapping ligand binding domains in chimeric fibroblast growth factor receptor molecules. Multiple regions determine ligand ... binding specificity". J. Biol. Chem. 274 (49): 34785-94. doi:10.1074/jbc.274.49.34785. PMID 10574949. Loo BB, Darwish KK, ...
The cytC' are capable of binding such ligands as CO, NO or CN(-), albeit with rate and equilibrium constants 100 to 1,000,000- ... The Chromatium vinosum cytC' exhibits dimer dissociation upon ligand binding. Class III comprises the low redox potential ... Kassner RJ (May 1991). "Ligand binding properties of cytochromes c'". Biochim. Biophys. Acta. 1058 (1): 8-12. doi:10.1016/s0005 ... Cytochromes c (cytC) are electron-transfer proteins having one or several heme c groups, bound to the protein by one or, more ...
Prior to ligand stimulation most RTKs present as a monomer on the surface of cells. Ligand binding to the extracellular domain ... Following ligand binding, a conformational change occurs in the EGFR monomers. This leads to EGFR dimerization. ... All RTKs consists of an extracellular ligand binding region, a single transmembrane helix and a cytoplasmic region (the ... Another example is the binding of insulin to insulin receptors. Once released into the bloodstream insulin can bind to ...
... allowing ligand access to the binding site. Divalent cations (e.g. Mg2+) are also required for integrin-ligand binding. ... P-selectins bind PSGL-1 as a ligand.. *E-selectins: E-selectin is expressed on activated endothelial cells. Synthesis of E- ... Like velcro, carbohydrate ligands on the circulating leukocytes bind to selectin molecules on the inner wall of the vessel, ... For example, the carbohydrate ligand for P-selectin, P-selectin glycoprotein ligand-1 (PSGL-1), is expressed by different types ...
Xu LZ, Sánchez R, Sali A, Heintz N (Oct 1996). "Ligand specificity of brain lipid-binding protein". The Journal of Biological ... Xu LZ, Sánchez R, Sali A, Heintz N (Oct 1996). "Ligand specificity of brain lipid-binding protein". The Journal of Biological ... Fatty acid binding protein 7, brain (FABP7; also brain lipid binding protein, BLBP), is a human gene. The protein encoded by ... Fatty acid binding proteins (FABPs) are a family of small, highly conserved, cytoplasmic proteins that bind long-chain fatty ...
... the above-mentioned meta-analysis uses results from 10 different ligands. Exaggerated ligand binding results such as SDZ GLC ... Monomer-dimer equilibrium coupled to ligand binding. Biochemistry. 1974;13(25):5214-9. doi:10.1021/bi00722a026. PMID 4433518. ... Since then another study has shown such elevated percentages in D2 receptors is brain-wide (using a different ligand, which did ... The link was strengthened by experiments in the 1970s which suggested that the binding affinity of antipsychotic drugs for D2 ...
... an extracellular N-terminal ligand-binding domain with cysteine-rich repeats (also called ligand-binding repeats), an epidermal ... THBS1 binds VLDLR and blocks ligand binding. This plays an important role in the reelin pathway, as THBS1 can block the ... VLDLR binds compounds containing apolipoprotein E (apoE). These ligands attach to the cysteine binding repeats in the N- ... VLDLR-III lacks exon 4 that encodes the third ligand-binding repeat. Finally, VLDLR-IV transcripts lack both exon 16 and exon 4 ...
... residues in ligand binding and receptor activation. A second rhodopsin based structural model of the H4 receptor was ... "Mapping histamine H4 receptor-ligand binding modes". MedChemComm. 4: 193-204. doi:10.1039/C2MD20212C. Nijmeijer S, Engelhardt H ... "Discovery of novel human histamine H4 receptor ligands by large-scale structure-based virtual screening". J. Med. Chem. 51 (11 ... "Molecular modeling and site-specific mutagenesis of the histamine-binding site of the histamine H4 receptor". Mol. Pharmacol. ...
Copper, zinc, manganese, and nickel are confirmed PrP ligands that bind to its octarepeat region. Ligand binding causes a ... metal ion binding. • tubulin binding. • protein binding. • identical protein binding. • copper ion binding. • lamin binding. • ... amyloid-beta binding. • protease binding. • glycosaminoglycan binding. • type 5 metabotropic glutamate receptor binding. • type ... chaperone binding. • ion channel binding. • microtubule binding. • ATP-dependent protein binding. • ...
Lu XJ, Shakked Z, Olson WK (July 2000). "A-form conformational motifs in ligand-bound DNA structures". Journal of Molecular ... A distinct group of DNA-binding proteins is the DNA-binding proteins that specifically bind single-stranded DNA. In humans, ... Other non-specific DNA-binding proteins in chromatin include the high-mobility group proteins, which bind to bent or distorted ... Enzymes can also bind to DNA and of these, the polymerases that copy the DNA base sequence in transcription and DNA replication ...
"The ligand binding site of the neurokinin 2 receptor. Site-directed mutagenesis and identification of neurokinin A binding ... Selective Ligands. Several selective ligands for NK2 are now available, and although most of the compounds developed so ... protein binding. Cellular component. • integral component of membrane. • membrane. • integral component of plasma membrane. • ...
Protein binding. 60%. Metabolism. Hepatic via CYP3A4. Elimination half-life. 1.8 ± 0.4 hours. ...
Ligand-free and -bound structures of the binding protein (LivJ) of the Escherichia coli ABC leucine/isoleucine/valine transport ... Literature: Receptor, ligand binding region (IPR001828). References used in this entry. The following publications were ... X-ray structures of the leucine-binding protein illustrate conformational changes and the basis of ligand specificity.. ... Structural views of the ligand-binding cores of a metabotropic glutamate receptor complexed with an antagonist and both ...
Such problems arise in the spectral analysis of ligand binding to macromolecule. Here, we present a spectral data analysis ... This methodology does not require prior knowledge of ligand molar extinction coefficients (free and bound), which potentially ... limits binding analysis. Data are acquired simply by reconstructing the experimental data and by adjusting the product of ... method using SVD (SVD analysis) and nonlinear fitting to determine the binding characteristics of intercalating drugs to DNA. ...
FLOWER-SPECIFIC DEFENSIN(4r)-2-Methylpentane-2,4-DiolDioctanoyl L-alpha-phosphatidyl-d-myo-inositol 4,5-diphosphateSulfate Ion[(2r)-2-Octanoyloxy-3-[oxidanyl-[(1r,2r,3s,4r,5r,6s)-2,3,6-Tris(Oxidanyl)-4,5-Diphosphonooxy-Cyclohexyl]oxy-Phosphoryl]oxy-Propyl]octanoate
Protein interactions and ligand binding: From protein subfamilies to functional specificity. Antonio Rausell, David Juan, ... Protein interactions and ligand binding: From protein subfamilies to functional specificity. Antonio Rausell, David Juan, ... Protein interactions and ligand binding: From protein subfamilies to functional specificity Message Subject (Your Name) has ... Protein interactions and ligand binding: From protein subfamilies to functional specificity. Antonio Rausell, David Juan, ...
... ligand-binding sites of small molecules and (ii) protein interaction sites. Ligand-binding sites are conceptually associated to ... ligand-binding residues and protein binding sites) is projected on it. ... Protein interactions and ligand binding: From protein subfamilies to functional specificity. Antonio Rausell, David Juan, ... Protein interactions and ligand binding: From protein subfamilies to functional specificity. Antonio Rausell, David Juan, ...
Proteins matched: Nuclear hormone receptor, ligand-binding domain (IPR000536) This domain is found in the following proteins: ...
AF-1: Activation Function-1; DBD: DNA binding domain; NLS: Nuclear localizing signal; LBD: Ligand binding domain; AF-2: ... ESR1 ligand-binding domain mutations in hormone-resistant breast cancer.. Toy W1, Shen Y, Won H, Green B, Sakr RA, Will M, Li Z ... two independent cohorts of metastatic ER-positive breast tumors and identified mutations in ESR1 affecting the ligand-binding ...
A D Podjarny; Annick P Dejaegere; Bruno Kieffer;] -- The binding of small ligands to biological molecules is central to most ... Biophysical approaches determining ligand binding to biomolecular targets. [ ... Ligand binding (Biochemistry) a schema:Intangible ;. schema:name "Ligand binding (Biochemistry)"@en ;. . ... Biophysical approaches determining ligand binding to biomolecular targets. Author:. A D Podjarny; Annick P Dejaegere; Bruno ...
Although a significant amount of information is available with respect to the planar aromatic hydrocarbon AhR ligands, the ... is a ligand-dependent transcription factor that can be activated by structurally diverse synthetic and naturally-occurring ... Ligand binding and activation of the Ah receptor Chem Biol Interact. 2002 Sep 20;141(1-2):3-24. doi: 10.1016/s0009-2797(02) ... In addition, the lack of information regarding the actual three-dimensional structure of the AhR ligand binding domain (LBD) ...
Novel compounds show high affinity for specific cocainereceptors in the brain, particularly dopamine transporter sites,and have the formula ##STR1## Wherein Y=CH.sub.2 R.sub.3, CO.sub.2R.sub.2 or ##STR2## R.sub.1 =hydrogen, C.sub.1-5 alkyl, R.sub.2=hydrogen, C.sub.1-6 alkyl, C.sub.3-8 cycloalkyl, C.sub.1-4 alkoxy,C.sub.1-6 alkynyl, halogen or amine, R.sub.3 =OH,
The invention relates to novel compounds which show highaffinity for cocaine receptors in the brain, particularly dopamineand serotonin transporter sites. The compounds may be used asimaging or pharmaceutical agents, in the diagnosis and treatment ofdrug addiction, depression, anorexia and neurodegenerativediseases.
Thus, the prediction of reliable binding poses of candidate ligands, through... ... Protein-Ligand Docking in Drug Design: Performance Assessment and Binding-Pose Selection. ... Thus, the prediction of reliable binding poses of candidate ligands, through molecular docking simulations, represents a key ... Ballante F. (2018) Protein-Ligand Docking in Drug Design: Performance Assessment and Binding-Pose Selection. In: Mavromoustakos ...
There is a substantial amount of historical ligand binding data available from site-directed mutagenesis (SDM) studies of many ... GPCRs Adenosine receptors Homology modeling Ligand binding Binding kinetics Receptor Site-directed mutagenesis ... This information was generated prior to the wave of GPCR crystal structure, in an effort to understand ligand binding with a ... There is a substantial amount of historical ligand binding data available from site-directed mutagenesis (SDM) studies of many ...
HORMONE-BOUND HUMAN PROGESTERONE RECEPTOR LIGAND-BINDING DOMAIN. *DOI: 10.2210/pdb1A28/pdb ... Here we report the 1.8 A crystal structure of a progesterone-bound ligand-binding domain of the human progesterone receptor. ... A hormone-induced stabilization of the carboxy-terminal secondary structure of the ligand-binding domain of the progesterone ... 3D View: Structure , Electron Density , Ligand Interaction. Global Symmetry: Asymmetric - C1 Global Stoichiometry: Monomer - A1 ...
PR ligand, such as progesterone, induces conformation changes in PR ligand binding domain (LBD), thus mediates subsequent gene ... However, no apo-form (non-ligand bound) of PR LBD model has been proposed either by experiments or computational methods so far ... the structural dynamics of PR LBD using molecular dynamics simulations and advanced sampling tools in both ligand-bound and the ... PR LBD may adopt different conformations upon an agonist or an antagonist binding. These different conformations would trigger ...
Recognition and biochemical processing of DNA requires that proteins and other ligands are able to distinguish their DNA ... binding sites from other parts of the molecule. In addition to the direct recognition elements embedded in the linear sequence ... A-form conformational motifs in ligand-bound DNA structures J Mol Biol. 2000 Jul 21;300(4):819-40. doi: 10.1006/jmbi.2000.3690 ... Our analysis pinpoints ligand-induced conformational changes that are difficult to detect from the global perspective used in ...
3D View: Structure , Electron Density , Ligand Interaction. Global Symmetry: Cyclic - C2 (3D View). Global Stoichiometry: Homo ... 3D View: Structure , Electron Density , Ligand Interaction. Global Symmetry: Cyclic - C2 (3D View). Global Stoichiometry: Homo ... 3D View: Structure , Electron Density , Ligand Interaction. Global Symmetry: Cyclic - C2 (3D View). Global Stoichiometry: Homo ... 3D View: Structure , Electron Density , Ligand Interaction. Global Symmetry: Cyclic - C2 (3D View). Global Stoichiometry: Homo ...
... is modulated by ligand binding. In the absence of bound ligands, DHFR extends at very low forces, averaging 27 pN, without any ... Ligand binding modulates the mechanical stability of dihydrofolate reductase.. [Sri Rama Koti Ainavarapu, Lewyn Li, Carmen L ... Our results explain the large reduction in the degradation rate of DHFR, in the presence of its ligands. Our observations ... By contrast, in the presence of micromolar concentrations of the ligands methotrexate, nicotinamide adenine dihydrogen ...
The initial ligand concentration also determines the probability of binding since it allows for more ligand to be bound to the ... The initial ligand concentration also determines the probability of binding since it allows for more ligand to be bound to the ... So through this I could find the ratio of bound ligand to total available binding sites under the given ligand concentration ... A monovalent ligand binds to a protein with six in independent, identical binding sites. What is the probability that a given ...
Ligand binding assays (LBA) is an assay, or an analytic procedure, whose procedure or method relies on the binding of ligand ... Many ligand binding assays require a filtration step to separate bound and unbound ligands before screening. A method called ... Specific binding types to ligand and receptor interactions: Technologies for ligand binding assay continue to advance related ... There are numerous types of ligand binding assays, both radioactive and non-radioactive. As such, ligand binding assays are a ...
Flexibility of the βC′-βE Loop Modulates Ligand-Binding Specificity/Promiscuity. We surmise that, in the absence of FGF ligand ... The regulation of ligand-binding specificity of FGFR is essential for the control of FGF signaling and is primarily achieved by ... D1 and the D1-D2 linker negatively regulate ligand- and heparin-binding affinity of FGFR3c. (A and B) Sensorgrams of the two- ... The plasticity of the βC′-βE loop is harmonious with this loop playing a decisive role in both ligand-binding specificity and ...
Microbeads can be used as surfaces to allow different ligands to bind to proteins. The aim of this study is to automate a ... Identifying binding peptides can be useful for protein purification, diagnostics and therapeutics. ...
Rusting of the lock and key model for protein-ligand binding Message Subject. (Your Name) has forwarded a page to you from ...
... predicted to form a ligand-binding pocket, with residues possessing bulkier side chains reduces JH III binding likely because ... it prevents both the ligand-dependent dissociation of the Met-Met dimer and the ligand-dependent interaction of Met with its ... Although a mutation that abolishes JH III binding does not affect a Met-Met complex that forms in the absence of methoprene, ... These results show that Met can sense the JH signal through direct, specific binding, thus establishing a unique class of ...
Q. Im performing a ligand binding assay on whole, unfixed adherent cells. What binding buffer do you recommend? ... View our information on labeling your own ligand. We also provide custom labeling services. DELFIA ligand-receptor binding ... Eu-labeled ligand - view information on labeling your own ligand; we can custom-label your ligand as well ... For a ligand binding assay using adherent, unfixed cells, we recommend using 10-15 mM Tris-HCl, 0.9% NaCl, pH 7.8 as a wash ...
ProteinsAffinitiesStudy of ligandMonovalent ligandSpecificityStructuralTypes of bindingResidues involved in ligandHydrophobicRecognitionEquilibriumFree ligandsNatural ligandsMultivalent ligandsAssay techniquesAgonistsConstantsAmino acidsCalculationsSelectivityPHERAstar FSMolecular DynamicsFluorescentSelectivelyExperimentsAssays provideMacromoleculeMethodsExtracellularBiologically activeAbsenceDeterminantsAgonistPrediction
- Mutational analysis of the glycine-binding site of the NMDA receptor: structural similarity with bacterial amino acid-binding proteins. (ebi.ac.uk)
- Recognition and biochemical processing of DNA requires that proteins and other ligands are able to distinguish their DNA binding sites from other parts of the molecule. (nih.gov)
- These may include the global conservation of catalytic mechanisms (in the case of enzymes), specific binding to substrates and cofactors, as well as the interaction with other proteins in processes such as cell signaling, the regulation of reactions and the formation of macromolecular complexes. (pnas.org)
- Concerted efforts to determine the atomic structure of GPCRs have proven extremely successful and there are now more than 80 GPCR crystal structure in the PDB database, many of which have been obtained in the presence of receptor ligands and associated G proteins. (springer.com)
- The foundations for which ligand binding assay have been built are a result of Karl Landsteiner, in 1945, and his work on immunization of animals through the production of antibodies for certain proteins. (wikipedia.org)
- Microbeads can be used as surfaces to allow different ligands to bind to proteins. (aiche.org)
- In this thesis, longstanding problems with regard to ligand binding are treated with computational methods, applied to proteins of key pharmaceutical importance. (dissertations.se)
- We propose that binding to folding intermediates may dominate the effect of ligands on the stability of multi-domain proteins, and could therefore have a strong impact on protein homeostasis in vivo . (rsc.org)
- The aim of advanced computational techniques is to identify the active sites in specific proteins and moreover to suggest a generalized mechanism by which such protein-ligand (or protein-protein) interactions can be effected. (springer.com)
- This paper describes the use of magnetic levitation (MagLev) to measure the association of proteins and ligands. (harvard.edu)
- Two affibody variants were shown to selectively bind to the extracellular domain of HER2/neu (HER2-ECD), but not to control proteins. (diva-portal.org)
- While we focus on the binding of organic molecules to proteins, the approach is in principle transferable to any pair of molecules. (springer.com)
- Constructing Patch-Based Ligand-Binding Pocket Database for Predicting Function of Proteins. (purdue.edu)
- Often functional clues of unknown proteins can be obtained by predicting small ligand molecules that bind to the proteins. (purdue.edu)
- We tested Patch-Surfer on the extended pocket database to predict binding ligand of 75 non-homologous proteins that bind one of seven different ligands. (purdue.edu)
- Sael, Lee and Kihara, Daisuke, "Constructing Patch-Based Ligand-Binding Pocket Database for Predicting Function of Proteins. (purdue.edu)
- A family of erythrocyte binding proteins of malaria parasites. (ajtmh.org)
- Identification of the erythrocyte binding domains of Plasmodium vivax and Plasmodium knowlesi proteins involved in erythrocyte invasion. (ajtmh.org)
- BIND Therapeutics, Inc. (NASDAQ: BIND), a biotechnology company developing targeted and programmable therapeutics called ACCURINS®, today announced a research collaboration with Affilogic, a privately held biotechnology company developing affinity proteins called Nanofitins® that selectively bind and interact with identified targets. (thestreet.com)
- DNAM-1/CD226 and TIGIT both bind to CD112/Nectin-2 and CD155/PVR, two proteins that are frequently up-regulated on tumor cells, but they have opposing effects on NK cell activity. (rndsystems.com)
- Because telomestatin causes cellular effects analogous to those due to dysfunctional telomeric proteins, and because POT1 regulates in vitro the G-quadruplex conformation at telomeres ( 13 ), we have investigated the effect of a telomestatin treatment on POT1 binding in vitro and in human cells using a green fluorescent protein (GFP) fusion protein. (aacrjournals.org)
- Using tools from the FEniCS library and the APBS solver, we implement a numerical code for our method and study two Ca2+-binding proteins: troponin C and the sarcoplasmic reticulum Ca2+ ATPase. (simula.no)
- Specific recognition of ligands including metal ions by proteins is the key of many crucial biological functions and systems. (utexas.edu)
- Hormone receptors are a wide family of proteins made up of receptors for thyroid and steroid hormones, retinoids and Vitamin D, and a variety of other receptors for various ligands, such as fatty acids and prostaglandins. (wikipedia.org)
- Hormone receptor proteins bind to a hormone as a result of an accumulation of weak interactions. (wikipedia.org)
- EmrR was found to bind putative ligands of the EmrAB pump-2,4-dinitrophenol, carbonyl cyanide m -chlorophenylhydrazone, and carbonyl cyanide p -(trifluoro-methoxy)phenylhydrazone-with affinities in the micromolar range. (asm.org)
- This accounts for the broad but selective binding by ORs as well as their relatively low ligand-binding affinities. (jneurosci.org)
- The calculated binding affinities quantitatively agree with experimental studies for cholera toxin (n = 5) and anthrax receptor (n = 7) and allow to predict optimal core size and optimal linker length. (uio.no)
- Genheden S, Ryde U (2015) The MM/PBSA and MM/GBSA methods to estimate ligand-binding affinities. (springer.com)
- We collected from the literature a structurally diverse set of 45 nonsteroidal anti-inflammatory drugs (NSAIDs) and COX-2-selective inhibitors (coxibs) with a wide range of binding affinities for COX-1. (diva-portal.org)
- The binding of this data set to a homology model of human COX-1 was analyzed with different combinations of molecular docking algorithms, scoring functions, and the linear interaction energy (LIE) method for estimating binding affinities. (diva-portal.org)
- It is found that the computational protocols for estimation of binding affinities are extremely sensitive to the initial orientations of the ligands in the binding pocket. (diva-portal.org)
- Fluorescent ligands for GPCRs (CellAura Tehnologies, Ltd.) provide a safer method for determining ligand binding affinities. (selectscience.net)
- We have compared the predictions of ligand-binding affinities from several methods based on end-point molecular dynamics simulations and continuum solvation, i.e. methods related to MM/PBSA (molecular mechanics combined with Poisson-Boltzmann and surface area solvation). (lu.se)
- To address this issue, a methodology has been developed to rank binding affinities for ligands based on NMR-based screens that use 1D 1 H NMR line-broadening experiments. (unl.edu)
- The results were found to give good agreement with previous affinities that have been reported for these same ligands with HSA. (unl.edu)
- A monovalent ligand binds to a protein with six in independent, identical binding sites. (physicsforums.com)
- Ligands consist of a geometrically matching rigid polygonal core to which monovalent ligand units are attached via flexible linker polymers, closely mimicking existing experimental designs. (uio.no)
- Ligand-free and -bound structures of the binding protein (LivJ) of the Escherichia coli ABC leucine/isoleucine/valine transport system: trajectory and dynamics of the interdomain rotation and ligand specificity. (ebi.ac.uk)
- X-ray structures of the leucine-binding protein illustrate conformational changes and the basis of ligand specificity. (ebi.ac.uk)
- Previous studies have limited their analysis to the study of the relationship between these positions and ligand-binding specificity, demonstrating significant yet limited predictive capacity. (pnas.org)
- A commonly accepted working hypothesis is that whereas fully conserved positions are related to functional features common to all the members of the family, these other residues are related to functional specificity (e.g., binding of different cofactors). (pnas.org)
- The prototypical fibroblast growth factor receptor (FGFR) extracellular domain consists of three Ig domains (D1-D3) of which the two membrane-proximal D2 and D3 domains and the interconnecting D2-D3 linker bear the determinants of ligand binding and specificity. (pnas.org)
- Importantly, comparison of the three FGF1-FGFR structures shows that the flexibility of the βC′-βE loop is a major determinant of ligand-binding specificity and promiscuity. (pnas.org)
- The regulation of ligand-binding specificity of FGFR is essential for the control of FGF signaling and is primarily achieved by alternative splicing of FGFR. (pnas.org)
- In addition, comparison of the FGF2-FGFR2c, and FGF10-FGFR2b structures have revealed that specific contacts made with the alternatively spliced βC′-βE loop in D3 are the principal determinants of ligand-binding specificity ( 14 , 16 ). (pnas.org)
- In contrast, a study in which chimeric FGFR1 and FGFR3 constructs were used to map the determinants of ligand binding and specificity suggested that the D1-D2 linker of FGFR3c confers specific binding to FGF8 and FGF9 ( 17 ). (pnas.org)
- Furthermore, we succeeded in rational receptor design, inserting point mutations in the odorant-binding site that resulted in predicted changes in ligand specificity and antagonist activity. (jneurosci.org)
- Such broad and specific sensitivity suggests an evolutionary process during which mutations in the active site led to an enormous number of ORs with a wide range of ligand specificity. (jneurosci.org)
- Structural views of the ligand-binding cores of a metabotropic glutamate receptor complexed with an antagonist and both glutamate and Gd3+. (ebi.ac.uk)
- The past twenty years has seen the development of an increasing armoury of biophysical methods that not only detect such binding, but also provide varying degrees of information about the kinetics, thermodynamics and structural aspects of the process. (worldcat.org)
- It is a powerful technique to detect ligand induced changes in biomolecules as it has distinct signals and provides different levels of structural information. (dissertations.se)
- This structural feature was taken advantage of to establish its use as reporter for ligand contact measuring polarized fluorescence emission. (uni-muenchen.de)
- The large body of structural data available for several members of the QS LuxR family complexed with different classes of ligands (AHLs and other compounds), has been exploited to dissect the cartography of their regulatory domains through structure-based multiple sequence alignments, structural superimposition and a comparative analysis of the contact residues involved in ligand binding. (mdpi.com)
- The structural models of biotin, keto-biotin, and testosterone were placed in the ligand-binding pocket of the protein structures by molecular docking. (uta.fi)
- We show consecutive structural rearrangements and channel activation of TRPM2 induced by binding of ADPR in two indispensable locations, and the binding of Ca 2+ in the transmembrane domain. (elifesciences.org)
- Our Comparison of Protein Active-Site Structures (CPASS v.2) database and software compares the sequence and structural characteristics of experimentally determined ligand binding sites to infer a functional relationship in the absence of global sequence or structure similarity. (unl.edu)
- In Bacillus subtilis , BmrR, a MerR family transcriptional activator, binds chemically unrelated hydrophobic cations, such as tetraphenylphosphonium and rhodamine, and activates transcription of the BMR pump ( 1 ). (asm.org)
- The design of the binding site agrees well with its ability to accommodate a broad range of hydrophobic cations. (asm.org)
- In Staphylococcus aureus , QacR, belonging to the TetR family of repressors, also binds various hydrophobic cations and controls the expression of the QacA MDR pump ( 5 ). (asm.org)
- PRDT's Ligand technology targets hydrophobic pockets or 'canyons' in viruses. (infectioncontroltoday.com)
- These domains and ligands are hydrophobic and are able to travel through the membrane. (wikipedia.org)
- These observations identify an innate recognition system by NaD1 for direct binding of PIP2 that permeabilizes cells via a novel membrane disrupting mechanism. (rcsb.org)
- Accurate prediction of the binding strength not only sheds light on the mechanism of the molecular recognition but also provides the most important prerequisite of drug discovery. (utexas.edu)
- Equilibrium dialysis experiments suggested one bound ligand per monomer of the dimeric EmrR. (asm.org)
- This parameter change enabled calculating the equilibrium binding constant and kinetic rate constants. (uni-muenchen.de)
- Spectral analysis indicates that ligand binding to this region affects CcO activity by altering the K-path-dependent electron transfer equilibrium between heme a and heme a(3). (biomedsearch.com)
- The first equilibrium describes the reversible binding reaction, in which the agonist associates with and dissociates from the ligand-binding site. (aspetjournals.org)
- The equilibrium dissociation constant ( K A ) is the ratio of the dissociation ( k -1 ) and association ( k +1 ) rate constants for ligand binding to the receptor. (aspetjournals.org)
- As an example, LLPC demonstrated that isoforms of lactate dehydrogenase as well as of hexokinase existed in a ligand-dependent equilibrium between two forms and that conformational changes occurred when monoclonal antibodies bound haptens. (lu.se)
- This method was demonstrated by using it to estimate the dissociation equilibrium constants for twelve ligands with the protein human serum albumin (HSA). (unl.edu)
- Investigators use a large range of experimental methods based on physical differences between bound and free ligands to determine binding constants. (hindawi.com)
- Without the exact knowledge of the spectra of bound and free ligands, the strong dependence of the model with ligand distribution, experimental data obtained near the detection limit, or high noise or scattering (for a long path length) may impair the ability to determine binding parameters with reproductivity and confidence, particularly when the ligand/macromolecule ratio ( ) is low. (hindawi.com)
- Scientists at the Swiss Federal Institute of Technology in Lausanne used a computer simulation to discover a novel binding site for natural ligands and drugs. (acm.org)
- Using a computer model of the muscarinic acetylcholine receptor, researchers at the Swiss Federal Institute of Technology in Lausanne (EPFL) in Switzerland have found a unique binding site for natural ligands and drugs. (acm.org)
- Natural Ligands of the B Cell Adhesion Molecule CD22.beta. (freepatentsonline.com)
- The determination of association constants of binding between biological macromolecules and their ligands is of fundamental importance for the characterization of the energetics of biochemical reactions. (hindawi.com)
- K. B. Hall and J. K. Kranz, 'Nitrocellulose Filter Binding for Determination of Dissociation Constants,' Methods in Molecular Biology , 118 , 1999 pp. 105-114. (wolfram.com)
- Substitution of individual amino acids, predicted to form a ligand-binding pocket, with residues possessing bulkier side chains reduces JH III binding likely because of steric hindrance. (archives-ouvertes.fr)
- Our results indicate that several amino acids in the transmembrane domains formed a ligand-binding pocket. (jneurosci.org)
- One form of CAR, termed CAR2, contains an additional four amino acids (SPTV) that are predicted to reshape the ligand-binding pocket. (aspetjournals.org)
- Specifically, we studied the codons of amino acids that bind or do not bind small molecular ligands. (uzh.ch)
- We found that the codons of ligand-binding amino acids are on average more robust than those of non-binding amino acids. (uzh.ch)
- In section 3, we describe pKa calculations for a series of ligands binding to the serine proteases trypsin and thrombin. (uni-marburg.de)
- Aldeghi M, Bodkin MJ, Knapp S, Biggin PC (2017) A statistical analysis on the performance of MMPBSA versus absolute binding free energy calculations: bromodomains as a case study. (springer.com)
- Aldeghi M, Heifetz A, Bodkin MJ, Knapp S, Biggin PC (2017) Predictions of ligand selectivity from absolute binding free energy calculations. (springer.com)
- Here, we present a user-friendly web interface, CHARMM-GUI Ligand Binder (http://www.charmm-gui.org/input/gbinding), to provide standardized CHARMM input files for calculations of absolute binding free energies using the FEP/MD simulations. (ku.edu)
- The interface and a series of input files generated by the interface are tested with illustrative calculations of absolute binding free energies of three non-polar aromatic ligands to the L99A mutant of T4 lysozyme and three FK506-related ligands to FKBP12. (ku.edu)
- Statistical errors within individual calculations are found to be small (~1 kcal/mol), and the calculated binding free energies generally agree well with the experimental measurements and the previous computational studies (within ~2 kcal/mol). (ku.edu)
- CHARMM-GUI Ligand Binder provides a convenient and reliable way to setup the ligand binding free energy calculations and can be applicable to pharmaceutically important protein-ligand systems. (ku.edu)
- Using advanced features on the PHERAstar FS, live cells are quickly and easily quantified for fluorescent ligand binding to the adherent cell layer in a 96-well plate format. (selectscience.net)
- The PHERAstar FS and CellAura fluorescent ligands provide a rapid and robust way to quantify receptor-ligand binding in live cells. (selectscience.net)
- In this thesis, molecular dynamics (MD) simulations are used to calculate thermodynamic properties for solvation and ligand binding. (dissertations.se)
- The team utilized 'molecular dynamics simulations' to model the atomic and molecular movements of the receptor's M3 and M4 subtypes and identify the binding site. (acm.org)
- Here, we present an introductory overview of a protocol that allows for the estimation of ligand binding free energies via molecular dynamics simulations. (springer.com)
- The detection of red fluorescence, which is caused by the excitation of the fluorescent label of the receptor by the transfer of resonance energy from the Nluc, indicates the specific binding of the ligand to the receptor. (news-medical.net)
- During the last two decades, the emergence of new fluorescence-based strategies and the concomitant development of fluorescent measurement apparatus have dramatically widened the use of fluorescent ligands. (biochemsoctrans.org)
- We also used these fluorescent ligands to analyse GPCR oligomerization by measuring FRET between ligands bound to receptor dimers. (biochemsoctrans.org)
- However, measurement of fluorescent ligand binding to cells relies on complex high resolution images. (selectscience.net)
- The hydroalcoholic extract selectively interacted with quisqualic acid (QA), group I metabotropic glutamate receptor (mGluR) ligand, while the aqueous extract did not alter the binding of QA. (hindawi.com)
- MONTREAL -- ProMetic Life Sciences Inc. has announced that its joint venture with the American Red Cross, Pathogen Removal and Diagnostic Technology Inc. (PRDT), has demonstrated that its proprietary Ligand technology can selectively bind and remove families of viruses from blood and blood products. (infectioncontroltoday.com)
- Bone marrow chimeric mice in which the entire hematopoietic compartment or iNKT cells selectively lacked BAFF, a proliferation-inducing ligand (APRIL), or both BAFF and APRIL were created and immunized with nitrophenol hapten-conjugated keyhole limpet hemocyanin adsorbed to Imject aluminum hydroxide-containing adjuvant or mixed with α-GC. (jimmunol.org)
- The saturation binding experiments with alprenolol-TAMRA were then performed by adding serially diluted alprenolol-TAMRA to the wells, with or without 10μM alprenolol, and incubating the plate at room temperature for 120 minutes. (news-medical.net)
- The saturation binding experiments with alprenolol- TAMRA were performed by operating the CLARIOstar plate reader in endpoint mode. (news-medical.net)
- B , Mφ were preincubated with HBSA, rHSP60, or rH-Ag for 30 min at 37°C, followed by incubation with viable Hc yeasts, HK yeasts, or the F/T Hc yeasts for 30 min at 37°C. The data are the mean attachment index (the number of yeasts bound/100 cells) of two experiments performed in duplicate. (jimmunol.org)
- Overall, the book supplies students with the understanding that is necessary for interpreting ligand binding experiments, formulating plausible reaction schemes, and analyzing the data according to the chosen model(s). (schweitzer-online.de)
- At the same time, it is important to have methods that can help predict how well does a potential drug molecule bind to its target. (dissertations.se)
- Also disclosed are methods of simulating hybridoma cells to increase monoclonal antibody production by administering a CD40 ligand polypeptide that stimulates B cell proliferation. (google.com.au)
- Hydrogen bonding patterns, ligand motion, and protein residue motion were found as applicable analysis methods. (uta.fi)
- Comparison of end-point continuum-solvation methods for the calculation of protein-ligand binding free energies. (lu.se)
- Crystal structure of hormone-bound atrial natriuretic peptide receptor extracellular domain: rotation mechanism for transmembrane signal transduction. (ebi.ac.uk)
- More particularly, this invention provides isolated human and murine CD40-L polypeptides that bind to the extracellular binding region of a CD40 receptor. (google.com.au)
- Affibody® (affibody) ligands that are specific for the extracellular domain of human epidermal growth factor receptor 2 (HER2/neu) have been selected by phage display technology from a combinatorial protein library based on the 58 amino acid residue staphylococcal protein A-derived Z domain. (diva-portal.org)
- In a second series of studies, Affibody® (affibody) ligands directed to the extracellular domain of human epidermal growth factor receptor 2 (HER2/neu), which is known to be overexpressed in ∼ 20-30% of breast cancers, were isolated by phage display in vitro selection from a combinatorial protein library based on the 58 amino acid residue staphylococcal protein A-derived Z domain. (diva-portal.org)
- Here, we demonstrate that Met specifically binds JH III and its biologically active mimics, methoprene and pyriproxyfen, through its C-terminal PAS domain. (archives-ouvertes.fr)
- Additionally, the surface of ACCURINS® can be functionalized with a variety of biologically active ligands, potentially with multiple types of ligands on the same particle. (thestreet.com)
- Lebon G, Bennett K, Jazayeri A, Tate CG (2011) Thermostabilisation of an agonist-bound conformation of the human adenosine A2A receptor. (springer.com)
- The results provide a molecular basis for the tight coupling of agonist binding and receptor activation. (aspetjournals.org)
- In 1957, del Castillo and Katz proposed a minimal model describing agonist-dependent activation of ligand-gated ion channels. (aspetjournals.org)
- a, agonist activation of ligand-gated ion channels is modeled by two coupled equilibria, according to del Castillo and Katz ( 1957 ). (aspetjournals.org)