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.
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.
The imide of phthalic acids.
A muscarinic antagonist used to study binding characteristics of muscarinic cholinergic receptors.
Cholinesterase reactivator occurring in two interchangeable isomeric forms, syn and anti.
A synthetic nondepolarizing blocking drug. The actions of gallamine triethiodide are similar to those of TUBOCURARINE, but this agent blocks the cardiac vagus and may cause sinus tachycardia and, occasionally, hypertension and increased cardiac output. It should be used cautiously in patients at risk from increased heart rate but may be preferred for patients with bradycardia. (From AMA Drug Evaluations Annual, 1992, p198)
A specific subtype of muscarinic receptor found in the lower BRAIN, the HEART and in SMOOTH MUSCLE-containing organs. Although present in smooth muscle the M2 muscarinic receptor appears not to be involved in contractile responses.
Allosteric enzymes that regulate glycolysis and gluconeogenesis. These enzymes catalyze phosphorylation of fructose-6-phosphate to either fructose-1,6-bisphosphate (PHOSPHOFRUCTOKINASE-1 reaction), or to fructose-2,6-bisphosphate (PHOSPHOFRUCTOKINASE-2 reaction).
Benzopyrroles with the nitrogen at the number two carbon, in contrast to INDOLES which have the nitrogen adjacent to the six-membered ring.
Models used experimentally or theoretically to study molecular shape, electronic properties, or interactions; includes analogous molecules, computer-generated graphics, and mechanical structures.
A specific subtype of muscarinic receptor that has a high affinity for the drug PIRENZEPINE. It is found in the peripheral GANGLIA where it signals a variety of physiological functions such as GASTRIC ACID secretion and BRONCHOCONSTRICTION. This subtype of muscarinic receptor is also found in neuronal tissues including the CEREBRAL CORTEX and HIPPOCAMPUS where it mediates the process of MEMORY and LEARNING.
A cholinesterase inhibitor that crosses the blood-brain barrier. Tacrine has been used to counter the effects of muscle relaxants, as a respiratory stimulant, and in the treatment of Alzheimer's disease and other central nervous system disorders.
The parts of a macromolecule that directly participate in its specific combination with another molecule.
The rate dynamics in chemical or physical systems.
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)
Quantitative determination of receptor (binding) proteins in body fluids or tissue using radioactively labeled binding reagents (e.g., antibodies, intracellular receptors, plasma binders).
An isoenzyme of GLYCOGEN PHOSPHORYLASE that catalyzes the degradation of GLYCOGEN in muscle. Mutation of the gene coding this enzyme is the cause of McArdle disease (GLYCOGEN STORAGE DISEASE TYPE V).
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).
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.
The region of an enzyme that interacts with its substrate to cause the enzymatic reaction.
Adenine nucleotide containing one phosphate group esterified to the sugar moiety in the 2'-, 3'-, or 5'-position.
An enzyme that catalyzes the conversion of D-fructose 1,6-bisphosphate and water to D-fructose 6-phosphate and orthophosphate. EC 3.1.3.11.
Diphosphoric acid esters of fructose. The fructose-1,6- diphosphate isomer is most prevalent. It is an important intermediate in the glycolysis process.
The study of crystal structure using X-RAY DIFFRACTION techniques. (McGraw-Hill Dictionary of Scientific and Technical Terms, 4th ed)
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.
The characteristic 3-dimensional shape and arrangement of multimeric proteins (aggregates of more than one polypeptide chain).
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.
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.
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.
Ribonucleotide Reductases are enzymes that catalyze the conversion of ribonucleotides to deoxyribonucleotides, which is a crucial step in DNA synthesis and repair, utilizing a radical mechanism for this conversion.
Genetically engineered MUTAGENESIS at a specific site in the DNA molecule that introduces a base substitution, or an insertion or deletion.
A cyclic nucleotide phosphodiesterase subfamily that is highly specific for CYCLIC GMP. It is found predominantly in vascular tissue and plays an important role in regulating VASCULAR SMOOTH MUSCLE contraction.
Hexosediphosphates are organic compounds consisting of a hexose sugar molecule, such as glucose, linked to two phosphate groups, playing crucial roles in energy metabolism and signaling pathways in living organisms.
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.
Large collections of small molecules (molecular weight about 600 or less), of similar or diverse nature which are used for high-throughput screening analysis of the gene function, protein interaction, cellular processing, biochemical pathways, or other chemical interactions.
One of the two major classes of cholinergic receptors. Muscarinic receptors were originally defined by their preference for MUSCARINE over NICOTINE. There are several subtypes (usually M1, M2, M3....) that are characterized by their cellular actions, pharmacology, and molecular biology.
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.
Cytidine 5'-(trihydrogen diphosphate). A cytosine nucleotide containing two phosphate groups esterified to the sugar moiety. Synonyms: CRPP; cytidine pyrophosphate.
A subfamily in the family MURIDAE, comprising the hamsters. Four of the more common genera are Cricetus, CRICETULUS; MESOCRICETUS; and PHODOPUS.
A specific subtype of muscarinic receptor found in the CORPUS STRIATUM and the LUNG. It has similar receptor binding specificities to MUSCARINIC RECEPTOR M1 and MUSCARINIC RECEPTOR M2.
An adenine nucleotide containing three phosphate groups esterified to the sugar moiety. In addition to its crucial roles in metabolism adenosine triphosphate is a neurotransmitter.
The process of finding chemicals for potential therapeutic use.
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.
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.
Drugs that bind to and activate muscarinic cholinergic receptors (RECEPTORS, MUSCARINIC). Muscarinic agonists are most commonly used when it is desirable to increase smooth muscle tone, especially in the GI tract, urinary bladder and the eye. They may also be used to reduce heart rate.
An ester of glucose with phosphoric acid, made in the course of glucose metabolism by mammalian and other cells. It is a normal constituent of resting muscle and probably is in constant equilibrium with fructose-6-phosphate. (Stedman, 26th ed)
Cell surface proteins that bind glutamate and act through G-proteins to influence second messenger systems. Several types of metabotropic glutamate receptors have been cloned. They differ in pharmacology, distribution, and mechanisms of action.
Analogs of those substrates or compounds which bind naturally at the active sites of proteins, enzymes, antibodies, steroids, or physiological receptors. These analogs form a stable covalent bond at the binding site, thereby acting as inhibitors of the proteins or steroids.
Enzymes that catalyze the hydrolysis of cyclic GMP to yield guanosine-5'-phosphate.
A group of pyrido-indole compounds. Included are any points of fusion of pyridine with the five-membered ring of indole and any derivatives of these compounds. These are similar to CARBAZOLES which are benzo-indoles.
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.
Adenosine 5'-(trihydrogen diphosphate). An adenine nucleotide containing two phosphate groups esterified to the sugar moiety at the 5'-position.
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.
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.
2-, 3-, or 4-Pyridinecarboxylic acids. Pyridine derivatives substituted with a carboxy group at the 2-, 3-, or 4-position. The 3-carboxy derivative (NIACIN) is active as a vitamin.
Theoretical representations that simulate the behavior or activity of chemical processes or phenomena; includes the use of mathematical equations, computers, and other electronic equipment.
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.
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.
The monomeric units from which DNA or RNA polymers are constructed. They consist of a purine or pyrimidine base, a pentose sugar, and a phosphate group. (From King & Stansfield, A Dictionary of Genetics, 4th ed)
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.
A computer simulation developed to study the motion of molecules over a period of time.
A characteristic feature of enzyme activity in relation to the kind of substrate on which the enzyme or catalytic molecule reacts.
A low-energy attractive force between hydrogen and another element. It plays a major role in determining the properties of water, proteins, and other compounds.
Uridine 5'-(tetrahydrogen triphosphate). A uracil nucleotide containing three phosphate groups esterified to the sugar moiety.
The process by which two molecules of the same chemical composition form a condensation product or polymer.
The relationship between the dose of an administered drug and the response of the organism to the drug.
A family of hexahydropyridines.
Proteins prepared by recombinant DNA technology.
A metallic element that has the atomic symbol Mg, atomic number 12, and atomic weight 24.31. It is important for the activity of many enzymes, especially those involved in OXIDATIVE PHOSPHORYLATION.
The facilitation of a chemical reaction by material (catalyst) that is not consumed by the reaction.
The largest family of cell surface receptors involved in SIGNAL TRANSDUCTION. They share a common structure and signal through HETEROTRIMERIC G-PROTEINS.
The action of a drug that may affect the activity, metabolism, or toxicity of another drug.
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.
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)
Organic compounds containing the -CO-NH2 radical. Amides are derived from acids by replacement of -OH by -NH2 or from ammonia by the replacement of H by an acyl group. (From Grant & Hackh's Chemical Dictionary, 5th ed)
The species Oryctolagus cuniculus, in the family Leporidae, order LAGOMORPHA. Rabbits are born in burrows, furless, and with eyes and ears closed. In contrast with HARES, rabbits have 22 chromosome pairs.
Guanosine cyclic 3',5'-(hydrogen phosphate). A guanine nucleotide containing one phosphate group which is esterified to the sugar moiety in both the 3'- and 5'-positions. It is a cellular regulatory agent and has been described as a second messenger. Its levels increase in response to a variety of hormones, including acetylcholine, insulin, and oxytocin and it has been found to activate specific protein kinases. (From Merck Index, 11th ed)
The degree of similarity between sequences of amino acids. This information is useful for the analyzing genetic relatedness of proteins and species.
An enzyme that catalyzes the conversion of carbamoyl phosphate and L-aspartate to yield orthophosphate and N-carbamoyl-L-aspartate. (From Enzyme Nomenclature, 1992) EC 2.1.3.2.
Chemical groups containing the covalent disulfide bonds -S-S-. The sulfur atoms can be bound to inorganic or organic moieties.
A metallic element of atomic number 30 and atomic weight 65.38. It is a necessary trace element in the diet, forming an essential part of many enzymes, and playing an important role in protein synthesis and in cell division. Zinc deficiency is associated with ANEMIA, short stature, HYPOGONADISM, impaired WOUND HEALING, and geophagia. It is known by the symbol Zn.
Established cell cultures that have the potential to propagate indefinitely.
Compounds or agents that combine with an enzyme in such a manner as to prevent the normal substrate-enzyme combination and the catalytic reaction.

Enzyme-mononucleotide interactions: three different folds share common structural elements for ATP recognition. (1/1100)

Three ATP-dependent enzymes with different folds, cAMP-dependent protein kinase, D-Ala:D-Ala ligase and the alpha-subunit of the alpha2beta2 ribonucleotide reductase, have a similar organization of their ATP-binding sites. The most meaningful similarity was found over 23 structurally equivalent residues in each protein and includes three strands each from their beta-sheets, in addition to a connecting loop. The equivalent secondary structure elements in each of these enzymes donate four amino acids forming key hydrogen bonds responsible for the common orientation of the "AMP" moieties of their ATP-ligands. One lysine residue conserved throughout the three families binds the alpha-phosphate in each protein. The common fragments of structure also position some, but not all, of the equivalent residues involved in hydrophobic contacts with the adenine ring. These examples of convergent evolution reinforce the view that different proteins can fold in different ways to produce similar structures locally, and nature can take advantage of these features when structure and function demand it, as shown here for the common mode of ATP-binding by three unrelated proteins.  (+info)

A 20-kDa domain is required for phosphatidic acid-induced allosteric activation of phospholipase D from Streptomyces chromofuscus. (2/1100)

Two phospholipase D (PLD) enzymes with both hydrolase and transferase activities were isolated from Streptomyces chromofuscus. There were substantial differences in the kinetic properties of the two PLD enzymes towards monomeric, micellar, and vesicle substrates. The most striking difference was that the higher molecular weight enzyme (PLD57 approximately 57 kDa) could be activated allosterically with a low mole fraction of phosphatidic acid (PA) incorporated into a PC bilayer (Geng et al., J. Biol. Chem. 273 (1998) 12195-12202). PLD42/20, a tightly associated complex of two peptides, one of 42 kDa and the other 20 kDa, had a 4-6-fold higher Vmax toward PC substrates than PLD57 and was not activated by PA. N-Terminal sequencing of both enzymes indicated that both components of PLD42/20 were cleavage products of PLD57. The larger component included the N-terminal segment of PLD57 and contained the active site. The N-terminus of the smaller peptide corresponded to the C-terminal region of PLD57; this peptide had no PLD activity by itself. Increasing the pH of PLD42/20 to 8.9, followed by chromatography of PLD42/20 on a HiTrap Q column at pH 8.5 separated the 42- and 20-kDa proteins. The 42-kDa complex had about the same specific activity with or without the 20-kDa fragment. The lack of PA activation for the 42-kDa protein and for PLD42/20 indicates that an intact C-terminal region of PLD57 is necessary for activation by PA. Furthermore, the mechanism for transmission of the allosteric signal requires an intact PLD57.  (+info)

Stimulation of P-glycoprotein-mediated drug transport by prazosin and progesterone. Evidence for a third drug-binding site. (3/1100)

P-glycoprotein is a plasma membrane protein of mammalian cells that confers multidrug resistance by acting as a broad-specificity, ATP-dependent efflux transporter of diverse lipophilic neutral or cationic compounds. Previously, we identified two positively cooperative drug-binding sites of P-glycoprotein involved in transport [Shapiro, A. B. & Ling, V. (1997) Eur. J. Biochem. 250, 130-137]. The H site is selective for Hoechst 33342 and colchicine. The R site is selective for rhodamine 123 and anthracyclines. Substrate binding to one site stimulates transport by the other. In this paper, we show that prazosin and progesterone stimulate the transport of both Hoechst 33342 and rhodamine 123. Rhodamine 123 and prazosin (or progesterone) in combination stimulate Hoechst 33342 transport in an additive manner. In contrast, Hoechst 33342 and either prazosin or progesterone interfere with each other, so that the stimulatory effect of the combination on rhodamine 123 transport is less than that of each individually. Non-P-glycoprotein-specific effects of prazosin on membrane fluidity and permeability were excluded. These results indicate the existence of a third drug-binding site on P-glycoprotein with a positive allosteric effect on drug transport by the H and R sites. This allosteric site appears to be one of the sites of photoaffinity labeling of P-glycoprotein by [125I]iodoarylazidoprazosin [Safa, A. R., Agresti, M., Bryk, D. & Tamai, I. (1994) Biochemistry 33, 256-265] and is likely not to be capable of drug transport.  (+info)

Flavodoxin: an allosteric inhibitor of AMP nucleosidase from Azotobacter vinelandii. (4/1100)

Flavodoxin, which participates in nitrogen fixation, was found to be a potent allosteric inhibitor of AMP nucleosidase [EC 3.2.2.4] from Azotobacter vinelandii. It inhibited the enzyme by decreasing its affinity for ATP without affecting the maximum velocity. The inhibition constant for flavodoxin was estimated to be 10 muM, which is within the range of physiological concentration in the cells. The concentration of flavodoxin able to alter the activity in vitro suggests that this phenomenon could be of significance in the regulation of flavin biosynthesis in vivo. Flavin mononucleotide (FMN), a prosthetic group of flavodoxin, was also found to act as an allosteric inhibitor. Since no inhibitory action of apo-flavodoxin was observed, it was concluded that the FMN chromophore of the flavodoxin is responsible for the inhibition of the enzyme by this protein.  (+info)

Structural elements of the gamma-aminobutyric acid type A receptor conferring subtype selectivity for benzodiazepine site ligands. (5/1100)

gamma-aminobutyric acid type A (GABAA) receptors comprise a subfamily of ligand-gated ion channels whose activity can be modulated by ligands acting at the benzodiazepine binding site on the receptor. The benzodiazepine binding site was characterized using a site-directed mutagenesis strategy in which amino acids of the alpha5 subunit were substituted by their corresponding alpha1 residues. Given the high affinity and selectivity of alpha1-containing compared with alpha5-containing GABAA receptors for zolpidem, mutated alpha5 subunits were co-expressed with beta2 and gamma2 subunits, and the affinity of recombinant receptors for zolpidem was measured. One alpha5 mutant (bearing P162T, E200G, and T204S) exhibited properties similar to that of the alpha1 subunit, notably high affinity zolpidem binding and potentiation by zolpidem of GABA-induced chloride current. Two of these mutations, alpha5P162T and alpha5E200G, might alter binding pocket conformation, whereas alpha5T204S probably permits formation of a hydrogen bond with a proton acceptor in zolpidem. These three amino acid substitutions also influenced receptor affinity for CL218872. Our data thus suggest that corresponding amino acids of the alpha1 subunit, particularly alpha1-Ser204, are the crucial residues influencing ligand selectivity at the binding pocket of alpha1-containing receptors, and a model of this binding pocket is presented.  (+info)

Metal complexes as allosteric effectors of human hemoglobin: an NMR study of the interaction of the gadolinium(III) bis(m-boroxyphenylamide)diethylenetriaminepentaacetic acid complex with human oxygenated and deoxygenated hemoglobin. (6/1100)

The boronic functionalities on the outer surface of the Gd(III) bis(m-boroxyphenylamide)DTPA complex (Gd(III)L) enable it to bind to fructosamine residues of oxygenated glycated human adult hemoglobin. The formation of the macromolecular adduct can be assessed by NMR spectroscopy via observation of the enhancement of the solvent water proton relaxation rate. Unexpectedly, a strong binding interaction was also observed for the oxygenated unglycated human adult hemoglobin, eventually displaying a much higher relaxation enhancement. From relaxation rate measurements it was found that two Gd(III)L complexes interact with one hemoglobin tetramer (KD = 1.0 x 10(-5) M and 4.6 x 10(-4) M, respectively), whereas no interaction has been observed with monomeric hemoproteins. A markedly higher affinity of the Gd(III)L complex has been observed for oxygenated and aquo-met human adult hemoglobin derivatives with respect to the corresponding deoxy derivative. Upon binding, a net change in the quaternary structure of hemoglobin has been assessed by monitoring the changes in the high-resolution 1H-NMR spectrum of the protein as well as in the Soret absorption band. On the basis of these observations and the 11B NMR results obtained with the diamagnetic La(III)L complex, we suggest that the interaction between the lanthanide complex and deoxygenated, oxygenated, and aquo-met derivatives of human adult hemoglobin takes place at the 2, 3-diphosphoglycerate (DPG) binding site, through the formation of N-->B coordinative bonds at His143beta and His2beta residues of different beta-chains. The stronger binding to the oxygenated form is then responsible for a shift of the allosteric equilibrium toward the high-affinity R-state. Accordingly, Gd(III)L affinity for oxygenated human fetal hemoglobin (lacking His143beta) is significantly lower than that observed for the unglycated human adult tetramer.  (+info)

Mutations in the human UDP-N-acetylglucosamine 2-epimerase gene define the disease sialuria and the allosteric site of the enzyme. (7/1100)

Sialuria is a rare inborn error of metabolism characterized by cytoplasmic accumulation and increased urinary excretion of free N-acetylneuraminic acid (NeuAc, sialic acid). Overproduction of NeuAc is believed to result from loss of feedback inhibition of uridinediphosphate-N-acetylglucosamine 2-epimerase (UDP-GlcNAc 2-epimerase) by cytidine monophosphate-N-acetylneuraminic acid (CMP-Neu5Ac). We report the cloning and characterization of human UDP-GlcNAc 2-epimerase cDNA, with mutation analysis of three patients with sialuria. Their heterozygote mutations, R266W, R266Q, and R263L, indicate that the allosteric site of the epimerase resides in the region of codons 263-266. The heterozygous nature of the mutant allele in all three patients reveals a dominant mechanism of inheritance for sialuria.  (+info)

Steric effects on multivalent ligand-receptor binding: exclusion of ligand sites by bound cell surface receptors. (8/1100)

Steric effects can influence the binding of a cell surface receptor to a multivalent ligand. To account for steric effects arising from the size of a receptor and from the spacing of binding sites on a ligand, we extend a standard mathematical model for ligand-receptor interactions by introducing a steric hindrance factor. This factor gives the fraction of unbound ligand sites that are accessible to receptors, and thus available for binding, as a function of ligand site occupancy. We derive expressions for the steric hindrance factor for various cases in which the receptor covers a compact region on the ligand surface and the ligand expresses sites that are distributed regularly or randomly in one or two dimensions. These expressions are relevant for ligands such as linear polymers, proteins, and viruses. We also present numerical algorithms that can be used to calculate steric hindrance factors for other cases. These theoretical results allow us to quantify the effects of steric hindrance on ligand-receptor kinetics and equilibria.  (+info)

An allosteric site is a distinct and separate binding site on a protein (usually an enzyme) other than the active site where the substrate binds. The binding of a molecule (known as an allosteric modulator or effector) to this site can cause a conformational change in the protein's structure, which in turn affects its activity, either by enhancing (allosteric activation) or inhibiting (allosteric inhibition) its function. This allosteric regulation allows for complex control mechanisms in biological systems and is crucial for many cellular processes.

Allosteric regulation is a process that describes the way in which the binding of a molecule (known as a ligand) to an enzyme or protein at one site affects the ability of another molecule to bind to a different site on the same enzyme or protein. This interaction can either enhance (positive allosteric regulation) or inhibit (negative allosteric regulation) the activity of the enzyme or protein, depending on the nature of the ligand and its effect on the shape and/or conformation of the enzyme or protein.

In an allosteric regulatory system, the binding of the first molecule to the enzyme or protein causes a conformational change in the protein structure that alters the affinity of the second site for its ligand. This can result in changes in the activity of the enzyme or protein, allowing for fine-tuning of biochemical pathways and regulatory processes within cells.

Allosteric regulation is a fundamental mechanism in many biological systems, including metabolic pathways, signal transduction cascades, and gene expression networks. Understanding allosteric regulation can provide valuable insights into the mechanisms underlying various physiological and pathological processes, and can inform the development of novel therapeutic strategies for the treatment of disease.

Phthalimides are organic compounds that contain a phthalimide functional group. The phthalimide group consists of a pair of fused rings, a benzene ring and a five-membered ring containing two nitrogen atoms, with one of the nitrogen atoms being part of a carbonyl group.

Phthalimides are commonly used as intermediates in the synthesis of other organic compounds, including pharmaceuticals, agrochemicals, and dyes. They can also exhibit various biological activities, such as anti-inflammatory, antiviral, and anticancer properties. However, some phthalimides have been found to have toxic effects and may pose environmental and health concerns.

N-Methylscopolamine is a anticholinergic drug, which means it blocks the action of acetylcholine, a neurotransmitter in the body. It is a derivative of scopolamine and is used to treat various conditions such as gastrointestinal disorders (such as gastritis, peptic ulcer), Parkinson's disease, motion sickness, and to reduce saliva production during surgical or diagnostic procedures.

It works by blocking the muscarinic receptors in the nervous system, which leads to a decrease in the secretion of fluids (such as saliva, sweat, stomach acid) and decreased muscle contractions in the gastrointestinal tract. N-Methylscopolamine can also cause side effects such as dizziness, dry mouth, blurred vision, and difficulty urinating.

Obidoxime chloride is a medication that belongs to the class of drugs known as oximes. It is used as an antidote for nerve agent and organophosphate poisoning. Obidoxime works by reactivating the inhibited acetylcholinesterase enzyme, which is essential for normal functioning of the nervous system. This enzyme can be inhibited by nerve agents and organophosphates, leading to an overstimulation of the nervous system that can result in symptoms such as muscle weakness, seizures, respiratory failure, and death.

Obidoxime is administered intravenously and works by breaking down the bond between the nerve agent or organophosphate and the acetylcholinesterase enzyme, allowing the enzyme to function normally again. It is important to note that obidoxime should be administered as soon as possible after exposure to a nerve agent or organophosphate in order to be effective.

It's important to mention that Obidoxime Chloride is not used frequently and only in specific situations, it requires medical supervision and administration by trained healthcare professionals.

Gallamine triethiodide is not typically considered a medical term, but it is a pharmacological substance with historical use in anesthesia. It is a quaternary ammonium compound with muscarinic anticholinergic and skeletal muscle relaxant properties. The chemical formula for gallamine triethiodide is C17H24I3N2O2.

In a medical or clinical context, gallamine triethiodide has been used as an adjunct to general anesthesia to provide muscle relaxation during surgical procedures. However, due to its significant side effects and the availability of safer alternatives, it is no longer commonly used in modern anesthetic practice.

A muscarinic M2 receptor is a type of G protein-coupled receptor (GPCR) that binds to the neurotransmitter acetylcholine. It is one of five subtypes of muscarinic receptors (M1-M5) and is widely distributed throughout the body, particularly in the heart, smooth muscle, and exocrine glands.

The M2 receptor is coupled to the G protein inhibitory Gαi/o, which inhibits adenylyl cyclase activity and reduces intracellular cAMP levels. This leads to a variety of physiological responses, including negative chronotropy (slowing of heart rate) and negative inotropy (decreased contractility) in the heart, relaxation of smooth muscle in the bronchioles and gastrointestinal tract, and inhibition of exocrine gland secretion.

The M2 receptor is an important target for drugs used to treat a variety of conditions, including cardiovascular diseases, asthma, chronic obstructive pulmonary disease (COPD), and gastrointestinal disorders. Anticholinergic drugs such as atropine and ipratropium bind to the M2 receptor and block its activity, while muscarinic agonists such as bethanechol activate the receptor.

Phosphofructokinase (PFK) is an enzyme that plays a crucial role in regulating glycolysis, which is the metabolic pathway responsible for the conversion of glucose into energy. PFK catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-bisphosphate, using a molecule of adenosine triphosphate (ATP) as a source of energy. This reaction is a key regulatory step in glycolysis and is subject to allosteric regulation by various metabolites, such as ATP, ADP, and citrate, that signal the cell's energy status.

There are several isoforms of PFK found in different tissues, including PFK-1 (or muscle PFK) and PFK-2 (or liver PFK), which exhibit tissue-specific patterns of expression and regulation. Mutations in the genes encoding PFK can result in various inherited metabolic disorders, such as Tarui's disease, characterized by exercise intolerance, muscle cramps, and myoglobinuria.

Isoindoles are not typically considered in the context of medical definitions, as they are organic compounds that do not have direct relevance to medical terminology or human disease. However, isoindole is a heterocyclic compound that contains two nitrogen atoms in its structure and can be found in some naturally occurring substances and synthetic drugs.

Isoindoles are aromatic compounds, which means they have a stable ring structure with delocalized electrons. They can form the core structure of various bioactive molecules, including alkaloids, which are nitrogen-containing compounds that occur naturally in plants and animals and can have various pharmacological activities.

Some isoindole derivatives have been synthesized and studied for their potential medicinal properties, such as anti-inflammatory, antiviral, and anticancer activities. However, these compounds are still in the early stages of research and development and have not yet been approved for medical use.

Therefore, while isoindoles themselves do not have a specific medical definition, they can be relevant to the study of medicinal chemistry and drug discovery.

Molecular models are three-dimensional representations of molecular structures that are used in the field of molecular biology and chemistry to visualize and understand the spatial arrangement of atoms and bonds within a molecule. These models can be physical or computer-generated and allow researchers to study the shape, size, and behavior of molecules, which is crucial for understanding their function and interactions with other molecules.

Physical molecular models are often made up of balls (representing atoms) connected by rods or sticks (representing bonds). These models can be constructed manually using materials such as plastic or wooden balls and rods, or they can be created using 3D printing technology.

Computer-generated molecular models, on the other hand, are created using specialized software that allows researchers to visualize and manipulate molecular structures in three dimensions. These models can be used to simulate molecular interactions, predict molecular behavior, and design new drugs or chemicals with specific properties. Overall, molecular models play a critical role in advancing our understanding of molecular structures and their functions.

A muscarinic acetylcholine receptor (mAChR) is a type of G protein-coupled receptor (GPCR) that binds the neurotransmitter acetylcholine and mediates various responses in the body. The M1 subtype of muscarinic receptors (CHRM1) is widely distributed throughout the central and peripheral nervous system, with particularly high densities found in the cerebral cortex, hippocampus, striatum, and autonomic ganglia.

Muscarinic M1 receptors are coupled to G proteins of the Gq/11 family, which activate phospholipase C (PLC) upon receptor activation. This leads to the hydrolysis of phosphatidylinositol 4,5-bisphosphate (PIP2) into inositol trisphosphate (IP3) and diacylglycerol (DAG), which further trigger intracellular signaling cascades.

The activation of muscarinic M1 receptors is involved in several physiological processes, including:

* Cognitive functions such as learning, memory, and attention
* Excitatory neurotransmission in the hippocampus
* Regulation of smooth muscle tone, particularly in the gastrointestinal tract and airways
* Secretion of various hormones and enzymes, including those involved in insulin release and lipid metabolism

Dysregulation of muscarinic M1 receptors has been implicated in several pathological conditions, such as Alzheimer's disease, Parkinson's disease, schizophrenia, and irritable bowel syndrome. Therefore, targeting these receptors with pharmacological agents presents a potential therapeutic strategy for treating these disorders.

Tacrine is a parasympathomimetic alkaloid, which was used in the treatment of Alzheimer's disease. It works by increasing the levels of acetylcholine, a neurotransmitter in the brain that is important for memory and thinking. Tacrine was an inhibitor of acetylcholinesterase, the enzyme responsible for breaking down acetylcholine.

However, due to its significant hepatotoxicity (liver toxicity) and limited efficacy, tacrine is rarely used today. Other cholinesterase inhibitors, such as donepezil, rivastigmine, and galantamine, have largely replaced tacrine in the treatment of Alzheimer's disease.

In the context of medical and biological sciences, a "binding site" refers to a specific location on a protein, molecule, or cell where another molecule can attach or bind. This binding interaction can lead to various functional changes in the original protein or molecule. The other molecule that binds to the binding site is often referred to as a ligand, which can be a small molecule, ion, or even another protein.

The binding between a ligand and its target binding site can be specific and selective, meaning that only certain ligands can bind to particular binding sites with high affinity. This specificity plays a crucial role in various biological processes, such as signal transduction, enzyme catalysis, or drug action.

In the case of drug development, understanding the location and properties of binding sites on target proteins is essential for designing drugs that can selectively bind to these sites and modulate protein function. This knowledge can help create more effective and safer therapeutic options for various diseases.

In the context of medicine and pharmacology, "kinetics" refers to the study of how a drug moves throughout the body, including its absorption, distribution, metabolism, and excretion (often abbreviated as ADME). This field is called "pharmacokinetics."

1. Absorption: This is the process of a drug moving from its site of administration into the bloodstream. Factors such as the route of administration (e.g., oral, intravenous, etc.), formulation, and individual physiological differences can affect absorption.

2. Distribution: Once a drug is in the bloodstream, it gets distributed throughout the body to various tissues and organs. This process is influenced by factors like blood flow, protein binding, and lipid solubility of the drug.

3. Metabolism: Drugs are often chemically modified in the body, typically in the liver, through processes known as metabolism. These changes can lead to the formation of active or inactive metabolites, which may then be further distributed, excreted, or undergo additional metabolic transformations.

4. Excretion: This is the process by which drugs and their metabolites are eliminated from the body, primarily through the kidneys (urine) and the liver (bile).

Understanding the kinetics of a drug is crucial for determining its optimal dosing regimen, potential interactions with other medications or foods, and any necessary adjustments for special populations like pediatric or geriatric patients, or those with impaired renal or hepatic function.

A ligand, in the context of biochemistry and medicine, is a molecule that binds to a specific site on a protein or a larger biomolecule, such as an enzyme or a receptor. This binding interaction can modify the function or activity of the target protein, either activating it or inhibiting it. Ligands can be small molecules, like hormones or neurotransmitters, or larger structures, like antibodies. The study of ligand-protein interactions is crucial for understanding cellular processes and developing drugs, as many therapeutic compounds function by binding to specific targets within the body.

A radioligand assay is a type of in vitro binding assay used in molecular biology and pharmacology to measure the affinity and quantity of a ligand (such as a drug or hormone) to its specific receptor. In this technique, a small amount of a radioactively labeled ligand, also known as a radioligand, is introduced to a sample containing the receptor of interest. The radioligand binds competitively with other unlabeled ligands present in the sample for the same binding site on the receptor. After allowing sufficient time for binding, the reaction is stopped, and the amount of bound radioligand is measured using a technique such as scintillation counting. The data obtained from this assay can be used to determine the dissociation constant (Kd) and maximum binding capacity (Bmax) of the receptor-ligand interaction, which are important parameters in understanding the pharmacological properties of drugs and other ligands.

Glycogen phosphorylase, muscle form (GP-MM), also known as phosphorylase kinase, is an isoform of the glycogen phosphorylase enzyme that is primarily expressed in skeletal muscle tissue. This enzyme plays a critical role in the breakdown of glycogen, a stored form of glucose, to provide energy for muscle contraction and other cellular processes.

GP-MM is activated by the presence of calcium ions and phosphorylation, which is catalyzed by another enzyme called protein kinase A. Once activated, GP-MM catalyzes the rate-limiting step in glycogenolysis, the process of breaking down glycogen into glucose-1-phosphate, which can then be further metabolized to produce ATP, the primary energy currency of the cell.

Deficiencies in GP-MM function can lead to several inherited muscle disorders, including McArdle disease, a rare genetic disorder characterized by exercise intolerance and muscle cramps due to an inability to break down glycogen and generate energy during muscle contraction.

Protein conformation refers to the specific three-dimensional shape that a protein molecule assumes due to the spatial arrangement of its constituent amino acid residues and their associated chemical groups. This complex structure is determined by several factors, including covalent bonds (disulfide bridges), hydrogen bonds, van der Waals forces, and ionic bonds, which help stabilize the protein's unique conformation.

Protein conformations can be broadly classified into two categories: primary, secondary, tertiary, and quaternary structures. The primary structure represents the linear sequence of amino acids in a polypeptide chain. The secondary structure arises from local interactions between adjacent amino acid residues, leading to the formation of recurring motifs such as α-helices and β-sheets. Tertiary structure refers to the overall three-dimensional folding pattern of a single polypeptide chain, while quaternary structure describes the spatial arrangement of multiple folded polypeptide chains (subunits) that interact to form a functional protein complex.

Understanding protein conformation is crucial for elucidating protein function, as the specific three-dimensional shape of a protein directly influences its ability to interact with other molecules, such as ligands, nucleic acids, or other proteins. Any alterations in protein conformation due to genetic mutations, environmental factors, or chemical modifications can lead to loss of function, misfolding, aggregation, and disease states like neurodegenerative disorders and cancer.

Protein binding, in the context of medical and biological sciences, refers to the interaction between a protein and another molecule (known as the ligand) that results in a stable complex. This process is often reversible and can be influenced by various factors such as pH, temperature, and concentration of the involved molecules.

In clinical chemistry, protein binding is particularly important when it comes to drugs, as many of them bind to proteins (especially albumin) in the bloodstream. The degree of protein binding can affect a drug's distribution, metabolism, and excretion, which in turn influence its therapeutic effectiveness and potential side effects.

Protein-bound drugs may be less available for interaction with their target tissues, as only the unbound or "free" fraction of the drug is active. Therefore, understanding protein binding can help optimize dosing regimens and minimize adverse reactions.

A catalytic domain is a portion or region within a protein that contains the active site, where the chemical reactions necessary for the protein's function are carried out. This domain is responsible for the catalysis of biological reactions, hence the name "catalytic domain." The catalytic domain is often composed of specific amino acid residues that come together to form the active site, creating a unique three-dimensional structure that enables the protein to perform its specific function.

In enzymes, for example, the catalytic domain contains the residues that bind and convert substrates into products through chemical reactions. In receptors, the catalytic domain may be involved in signal transduction or other regulatory functions. Understanding the structure and function of catalytic domains is crucial to understanding the mechanisms of protein function and can provide valuable insights for drug design and therapeutic interventions.

Adenosine monophosphate (AMP) is a nucleotide that is the monophosphate ester of adenosine, consisting of the nitrogenous base adenine attached to the 1' carbon atom of ribose via a β-N9-glycosidic bond, which in turn is esterified to a phosphate group. It is an important molecule in biological systems as it plays a key role in cellular energy transfer and storage, serving as a precursor to other nucleotides such as ADP and ATP. AMP is also involved in various signaling pathways and can act as a neurotransmitter in the central nervous system.

Fructose-bisphosphatase (FBPase) is an enzyme that plays a crucial role in the regulation of gluconeogenesis, which is the process of generating new glucose molecules from non-carbohydrate sources in the body. Specifically, FBPase is involved in the fourth step of gluconeogenesis, where it catalyzes the conversion of fructose-1,6-bisphosphate to fructose-6-phosphate.

Fructose-1,6-bisphosphate is a key intermediate in both glycolysis and gluconeogenesis, and its conversion to fructose-6-phosphate represents an important regulatory point in these pathways. FBPase is inhibited by high levels of energy charge (i.e., when the cell has plenty of ATP and low levels of ADP), as well as by certain metabolites such as citrate, which signals that there is abundant energy available from other sources.

There are two main isoforms of FBPase in humans: a cytoplasmic form found primarily in the liver and kidney, and a mitochondrial form found in various tissues including muscle and brain. Mutations in the gene that encodes the cytoplasmic form of FBPase can lead to a rare inherited metabolic disorder known as fructose-1,6-bisphosphatase deficiency, which is characterized by impaired gluconeogenesis and hypoglycemia.

I'm sorry for any confusion, but "Fructosediphosphates" is not a recognized term in medicine or biochemistry. It's possible there may be a spelling mistake or misunderstanding in the term you're looking for.

If you meant "Fructose 1,6-bisphosphate," that is a key intermediate in carbohydrate metabolism. It's formed from fructose 6-phosphate in the process of glucose breakdown (glycolysis) and is then used in the generation of energy through the citric acid cycle.

If these terms are not what you were looking for, could you please provide more context or check the spelling? I'm here to help!

X-ray crystallography is a technique used in structural biology to determine the three-dimensional arrangement of atoms in a crystal lattice. In this method, a beam of X-rays is directed at a crystal and diffracts, or spreads out, into a pattern of spots called reflections. The intensity and angle of each reflection are measured and used to create an electron density map, which reveals the position and type of atoms in the crystal. This information can be used to determine the molecular structure of a compound, including its shape, size, and chemical bonds. X-ray crystallography is a powerful tool for understanding the structure and function of biological macromolecules such as proteins and nucleic acids.

Molecular structure, in the context of biochemistry and molecular biology, refers to the arrangement and organization of atoms and chemical bonds within a molecule. It describes the three-dimensional layout of the constituent elements, including their spatial relationships, bond lengths, and angles. Understanding molecular structure is crucial for elucidating the functions and reactivities of biological macromolecules such as proteins, nucleic acids, lipids, and carbohydrates. Various experimental techniques, like X-ray crystallography, nuclear magnetic resonance (NMR) spectroscopy, and cryo-electron microscopy (cryo-EM), are employed to determine molecular structures at atomic resolution, providing valuable insights into their biological roles and potential therapeutic targets.

Quaternary protein structure refers to the arrangement and interaction of multiple folded protein molecules in a multi-subunit complex. These subunits can be identical or different forms of the same protein or distinctly different proteins that associate to form a functional complex. The quaternary structure is held together by non-covalent interactions, such as hydrogen bonds, ionic bonds, and van der Waals forces. Understanding quaternary structure is crucial for comprehending the function, regulation, and assembly of many protein complexes involved in various cellular processes.

CHO cells, or Chinese Hamster Ovary cells, are a type of immortalized cell line that are commonly used in scientific research and biotechnology. They were originally derived from the ovaries of a female Chinese hamster (Cricetulus griseus) in the 1950s.

CHO cells have several characteristics that make them useful for laboratory experiments. They can grow and divide indefinitely under appropriate conditions, which allows researchers to culture large quantities of them for study. Additionally, CHO cells are capable of expressing high levels of recombinant proteins, making them a popular choice for the production of therapeutic drugs, vaccines, and other biologics.

In particular, CHO cells have become a workhorse in the field of biotherapeutics, with many approved monoclonal antibody-based therapies being produced using these cells. The ability to genetically modify CHO cells through various methods has further expanded their utility in research and industrial applications.

It is important to note that while CHO cells are widely used in scientific research, they may not always accurately represent human cell behavior or respond to drugs and other compounds in the same way as human cells do. Therefore, results obtained using CHO cells should be validated in more relevant systems when possible.

Tertiary protein structure refers to the three-dimensional arrangement of all the elements (polypeptide chains) of a single protein molecule. It is the highest level of structural organization and results from interactions between various side chains (R groups) of the amino acids that make up the protein. These interactions, which include hydrogen bonds, ionic bonds, van der Waals forces, and disulfide bridges, give the protein its unique shape and stability, which in turn determines its function. The tertiary structure of a protein can be stabilized by various factors such as temperature, pH, and the presence of certain ions. Any changes in these factors can lead to denaturation, where the protein loses its tertiary structure and thus its function.

"Competitive binding" is a term used in pharmacology and biochemistry to describe the behavior of two or more molecules (ligands) competing for the same binding site on a target protein or receptor. In this context, "binding" refers to the physical interaction between a ligand and its target.

When a ligand binds to a receptor, it can alter the receptor's function, either activating or inhibiting it. If multiple ligands compete for the same binding site, they will compete to bind to the receptor. The ability of each ligand to bind to the receptor is influenced by its affinity for the receptor, which is a measure of how strongly and specifically the ligand binds to the receptor.

In competitive binding, if one ligand is present in high concentrations, it can prevent other ligands with lower affinity from binding to the receptor. This is because the higher-affinity ligand will have a greater probability of occupying the binding site and blocking access to the other ligands. The competition between ligands can be described mathematically using equations such as the Langmuir isotherm, which describes the relationship between the concentration of ligand and the fraction of receptors that are occupied by the ligand.

Competitive binding is an important concept in drug development, as it can be used to predict how different drugs will interact with their targets and how they may affect each other's activity. By understanding the competitive binding properties of a drug, researchers can optimize its dosage and delivery to maximize its therapeutic effect while minimizing unwanted side effects.

Ribonucleotide Reductases (RNRs) are enzymes that play a crucial role in DNA synthesis and repair. They catalyze the conversion of ribonucleotides to deoxyribonucleotides, which are the building blocks of DNA. This process involves the reduction of the 2'-hydroxyl group of the ribose sugar to a hydrogen, resulting in the formation of deoxyribose.

RNRs are highly regulated and exist in various forms across different species. They are divided into three classes (I, II, and III) based on their structure, mechanism, and cofactor requirements. Class I RNRs are further divided into two subclasses (Ia and Ib), which differ in their active site architecture and regulation.

Class Ia RNRs, found in eukaryotes and some bacteria, contain a stable tyrosyl radical that acts as the catalytic center for hydrogen abstraction. Class Ib RNRs, found in many bacteria, use a pair of iron centers to perform the same function. Class II RNRs are present in some bacteria and archaea and utilize adenosine triphosphate (ATP) as a cofactor for reduction. Class III RNRs, found in anaerobic bacteria and archaea, use a unique mechanism involving a radical S-adenosylmethionine (SAM) cofactor to facilitate the reduction reaction.

RNRs are essential for DNA replication and repair, and their dysregulation has been linked to various diseases, including cancer and neurodegenerative disorders. Therefore, understanding the structure, function, and regulation of RNRs is of great interest in biochemistry, molecular biology, and medicine.

Site-directed mutagenesis is a molecular biology technique used to introduce specific and targeted changes to a specific DNA sequence. This process involves creating a new variant of a gene or a specific region of interest within a DNA molecule by introducing a planned, deliberate change, or mutation, at a predetermined site within the DNA sequence.

The methodology typically involves the use of molecular tools such as PCR (polymerase chain reaction), restriction enzymes, and/or ligases to introduce the desired mutation(s) into a plasmid or other vector containing the target DNA sequence. The resulting modified DNA molecule can then be used to transform host cells, allowing for the production of large quantities of the mutated gene or protein for further study.

Site-directed mutagenesis is a valuable tool in basic research, drug discovery, and biotechnology applications where specific changes to a DNA sequence are required to understand gene function, investigate protein structure/function relationships, or engineer novel biological properties into existing genes or proteins.

Cyclic nucleotide phosphodiesterases (PDEs) are a family of enzymes that regulate intracellular levels of cyclic adenosine monophosphate (cAMP) and cyclic guanosine monophosphate (cGMP) by catalyzing the hydrolysis of these second messenger molecules to their inactive forms. These signaling molecules play crucial roles in various cellular processes, including smooth muscle relaxation, cardiac contractility, and neurotransmission.

Type 5 PDEs (PDE5) are a subtype of this enzyme family that specifically hydrolyze cGMP. They are widely distributed in various tissues, including vascular smooth muscle, lung, platelets, and the corpus cavernosum of the penis. PDE5 is particularly important in the regulation of smooth muscle relaxation in the corpus cavernosum, where it plays a key role in the physiological response to sexual stimulation leading to penile erection.

PDE5 inhibitors, such as sildenafil (Viagra), tadalafil (Cialis), and vardenafil (Levitra), are commonly used to treat erectile dysfunction by increasing cGMP levels in the corpus cavernosum, thereby promoting smooth muscle relaxation and enhancing blood flow to the penis. These medications have also been investigated for their potential therapeutic benefits in other conditions, such as pulmonary arterial hypertension and benign prostatic hyperplasia.

Hexose diphosphates refer to a class of organic compounds that consist of a hexose sugar molecule (a monosaccharide containing six carbon atoms) linked to two phosphate groups. The most common examples of hexose diphosphates are glucose 1,6-bisphosphate and fructose 1,6-bisphosphate, which play important roles in cellular metabolism.

Glucose 1,6-bisphosphate is involved in the regulation of glycolysis, a process by which glucose is broken down to produce energy in the form of ATP. It acts as an allosteric regulator of several enzymes involved in this pathway and helps to maintain the balance between different metabolic processes.

Fructose 1,6-bisphosphate, on the other hand, is a key intermediate in gluconeogenesis, a process by which cells synthesize glucose from non-carbohydrate precursors. It is also involved in the regulation of glycolysis and helps to control the flow of metabolites through these pathways.

Overall, hexose diphosphates are important regulators of cellular metabolism and play a critical role in maintaining energy homeostasis in living organisms.

An amino acid sequence is the specific order of amino acids in a protein or peptide molecule, formed by the linking of the amino group (-NH2) of one amino acid to the carboxyl group (-COOH) of another amino acid through a peptide bond. The sequence is determined by the genetic code and is unique to each type of protein or peptide. It plays a crucial role in determining the three-dimensional structure and function of proteins.

A Small Molecule Library is a collection of a large number of chemically synthesized, low molecular weight (typically under 900 daltons) compounds, which are used in drug discovery and development research. These libraries contain diverse structures and chemical properties, allowing researchers to screen them against specific targets, such as proteins or genes, to identify potential lead compounds that can be further optimized for therapeutic use. The use of small molecule libraries enables high-throughput screening, which is a rapid and efficient method to identify potential drug candidates.

Muscarinic receptors are a type of G protein-coupled receptor (GPCR) that bind to the neurotransmitter acetylcholine. They are found in various organ systems, including the nervous system, cardiovascular system, and respiratory system. Muscarinic receptors are activated by muscarine, a type of alkaloid found in certain mushrooms, and are classified into five subtypes (M1-M5) based on their pharmacological properties and signaling pathways.

Muscarinic receptors play an essential role in regulating various physiological functions, such as heart rate, smooth muscle contraction, glandular secretion, and cognitive processes. Activation of M1, M3, and M5 muscarinic receptors leads to the activation of phospholipase C (PLC) and the production of inositol trisphosphate (IP3) and diacylglycerol (DAG), which increase intracellular calcium levels and activate protein kinase C (PKC). Activation of M2 and M4 muscarinic receptors inhibits adenylyl cyclase, reducing the production of cAMP and modulating ion channel activity.

In summary, muscarinic receptors are a type of GPCR that binds to acetylcholine and regulates various physiological functions in different organ systems. They are classified into five subtypes based on their pharmacological properties and signaling pathways.

A Structure-Activity Relationship (SAR) in the context of medicinal chemistry and pharmacology refers to the relationship between the chemical structure of a drug or molecule and its biological activity or effect on a target protein, cell, or organism. SAR studies aim to identify patterns and correlations between structural features of a compound and its ability to interact with a specific biological target, leading to a desired therapeutic response or undesired side effects.

By analyzing the SAR, researchers can optimize the chemical structure of lead compounds to enhance their potency, selectivity, safety, and pharmacokinetic properties, ultimately guiding the design and development of novel drugs with improved efficacy and reduced toxicity.

Cytidine diphosphate (CDP) is a nucleotide that is a constituent of coenzymes and plays a role in the synthesis of lipids, such as phosphatidylcholine and sphingomyelin, which are important components of cell membranes. It is formed from cytidine monophosphate (CMP) through the addition of a second phosphate group by the enzyme CTP synthase. CDP can also be converted to other nucleotides, such as uridine diphosphate (UDP) and deoxythymidine diphosphate (dTDP), through the action of various enzymes. These nucleotides play important roles in the biosynthesis of carbohydrates, lipids, and other molecules in the cell.

Cricetinae is a subfamily of rodents that includes hamsters, gerbils, and relatives. These small mammals are characterized by having short limbs, compact bodies, and cheek pouches for storing food. They are native to various parts of the world, particularly in Europe, Asia, and Africa. Some species are popular pets due to their small size, easy care, and friendly nature. In a medical context, understanding the biology and behavior of Cricetinae species can be important for individuals who keep them as pets or for researchers studying their physiology.

A muscarinic receptor, M4 (also known as CHRM4 or cholinergic receptor, muscarinic 4) is a type of G protein-coupled receptor found in the cell membrane that responds to the neurotransmitter acetylcholine. It has been identified as one of five muscarinic receptor subtypes (M1-M5).

The M4 receptor is widely distributed throughout the body, particularly in the brain and certain peripheral organs such as the heart and lungs. In the central nervous system, M4 receptors are found to be highly expressed in areas like the striatum, hippocampus, and cortex.

The activation of M4 receptors primarily inhibits adenylyl cyclase activity via coupling with G proteins (Gαi/o), which leads to a decrease in intracellular cAMP levels. This results in the modulation of various cellular responses, including ion channel activity and second messenger cascades.

M4 receptors have been implicated in several physiological functions, such as learning, memory, cognition, emotion, and neuroprotection. In addition, they play a role in regulating the release of other neurotransmitters like dopamine, glutamate, and GABA. Dysregulation of M4 receptors has been associated with various neurological and psychiatric disorders, including Parkinson's disease, schizophrenia, and addiction.

Adenosine Triphosphate (ATP) is a high-energy molecule that stores and transports energy within cells. It is the main source of energy for most cellular processes, including muscle contraction, nerve impulse transmission, and protein synthesis. ATP is composed of a base (adenine), a sugar (ribose), and three phosphate groups. The bonds between these phosphate groups contain a significant amount of energy, which can be released when the bond between the second and third phosphate group is broken, resulting in the formation of adenosine diphosphate (ADP) and inorganic phosphate. This process is known as hydrolysis and can be catalyzed by various enzymes to drive a wide range of cellular functions. ATP can also be regenerated from ADP through various metabolic pathways, such as oxidative phosphorylation or substrate-level phosphorylation, allowing for the continuous supply of energy to cells.

Drug discovery is the process of identifying new chemical entities or biological agents that have the potential to be used as therapeutic or preventive treatments for diseases. This process involves several stages, including target identification, lead identification, hit-to-lead optimization, lead optimization, preclinical development, and clinical trials.

Target identification is the initial stage of drug discovery, where researchers identify a specific molecular target, such as a protein or gene, that plays a key role in the disease process. Lead identification involves screening large libraries of chemical compounds or natural products to find those that interact with the target molecule and have potential therapeutic activity.

Hit-to-lead optimization is the stage where researchers optimize the chemical structure of the lead compound to improve its potency, selectivity, and safety profile. Lead optimization involves further refinement of the compound's structure to create a preclinical development candidate. Preclinical development includes studies in vitro (in test tubes or petri dishes) and in vivo (in animals) to evaluate the safety, efficacy, and pharmacokinetics of the drug candidate.

Clinical trials are conducted in human volunteers to assess the safety, tolerability, and efficacy of the drug candidate in treating the disease. If the drug is found to be safe and effective in clinical trials, it may be approved by regulatory agencies such as the U.S. Food and Drug Administration (FDA) for use in patients.

Overall, drug discovery is a complex and time-consuming process that requires significant resources, expertise, and collaboration between researchers, clinicians, and industry partners.

Molecular sequence data refers to the specific arrangement of molecules, most commonly nucleotides in DNA or RNA, or amino acids in proteins, that make up a biological macromolecule. This data is generated through laboratory techniques such as sequencing, and provides information about the exact order of the constituent molecules. This data is crucial in various fields of biology, including genetics, evolution, and molecular biology, allowing for comparisons between different organisms, identification of genetic variations, and studies of gene function and regulation.

"Cricetulus" is a genus of rodents that includes several species of hamsters. These small, burrowing animals are native to Asia and have a body length of about 8-15 centimeters, with a tail that is usually shorter than the body. They are characterized by their large cheek pouches, which they use to store food. Some common species in this genus include the Chinese hamster (Cricetulus griseus) and the Daurian hamster (Cricetulus dauuricus). These animals are often kept as pets or used in laboratory research.

Muscarinic agonists are a type of medication that binds to and activates muscarinic acetylcholine receptors, which are found in various organ systems throughout the body. These receptors are activated naturally by the neurotransmitter acetylcholine, and when muscarinic agonists bind to them, they mimic the effects of acetylcholine.

Muscarinic agonists can have a range of effects on different organ systems, depending on which receptors they activate. For example, they may cause bronchodilation (opening up of the airways) in the respiratory system, decreased heart rate and blood pressure in the cardiovascular system, increased glandular secretions in the gastrointestinal and salivary systems, and relaxation of smooth muscle in the urinary and reproductive systems.

Some examples of muscarinic agonists include pilocarpine, which is used to treat dry mouth and glaucoma, and bethanechol, which is used to treat urinary retention. It's important to note that muscarinic agonists can also have side effects, such as sweating, nausea, vomiting, and diarrhea, due to their activation of receptors in various organ systems.

Glucose-6-phosphate (G6P) is a vital intermediate compound in the metabolism of glucose, which is a simple sugar that serves as a primary source of energy for living organisms. G6P plays a critical role in both glycolysis and gluconeogenesis pathways, contributing to the regulation of blood glucose levels and energy production within cells.

In biochemistry, glucose-6-phosphate is defined as:

A hexose sugar phosphate ester formed by the phosphorylation of glucose at the 6th carbon atom by ATP in a reaction catalyzed by the enzyme hexokinase or glucokinase. This reaction is the first step in both glycolysis and glucose storage (glycogen synthesis) processes, ensuring that glucose can be effectively utilized for energy production or stored for later use.

G6P serves as a crucial metabolic branch point, leading to various pathways such as:

1. Glycolysis: In the presence of sufficient ATP and NAD+ levels, G6P is further metabolized through glycolysis to generate pyruvate, which enters the citric acid cycle for additional energy production in the form of ATP, NADH, and FADH2.
2. Gluconeogenesis: During periods of low blood glucose levels, G6P can be synthesized back into glucose through the gluconeogenesis pathway, primarily occurring in the liver and kidneys. This process helps maintain stable blood glucose concentrations and provides energy to cells when dietary intake is insufficient.
3. Pentose phosphate pathway (PPP): A portion of G6P can be shunted into the PPP, an alternative metabolic route that generates NADPH, ribose-5-phosphate for nucleotide synthesis, and erythrose-4-phosphate for aromatic amino acid production. The PPP is essential in maintaining redox balance within cells and supporting biosynthetic processes.

Overall, glucose-6-phosphate plays a critical role as a central metabolic intermediate, connecting various pathways to regulate energy homeostasis, redox balance, and biosynthesis in response to cellular demands and environmental cues.

Metabotropic glutamate receptors (mGluRs) are a type of G protein-coupled receptor (GPCR) that are activated by the neurotransmitter glutamate, which is the primary excitatory neurotransmitter in the central nervous system. There are eight different subtypes of mGluRs, labeled mGluR1 through mGluR8, which are classified into three groups (Group I, II, and III) based on their sequence homology, downstream signaling pathways, and pharmacological properties.

Group I mGluRs include mGluR1 and mGluR5, which are primarily located postsynaptically in the central nervous system. Activation of Group I mGluRs leads to increased intracellular calcium levels and activation of protein kinases, which can modulate synaptic transmission and plasticity.

Group II mGluRs include mGluR2 and mGluR3, which are primarily located presynaptically in the central nervous system. Activation of Group II mGluRs inhibits adenylyl cyclase activity and reduces neurotransmitter release.

Group III mGluRs include mGluR4, mGluR6, mGluR7, and mGluR8, which are also primarily located presynaptically in the central nervous system. Activation of Group III mGluRs inhibits adenylyl cyclase activity and voltage-gated calcium channels, reducing neurotransmitter release.

Overall, metabotropic glutamate receptors play important roles in modulating synaptic transmission and plasticity, and have been implicated in various neurological disorders, including epilepsy, pain, anxiety, depression, and neurodegenerative diseases.

Affinity labels are chemical probes or reagents that can selectively and covalently bind to a specific protein or biomolecule based on its biological function or activity. These labels contain a functional group that interacts with the target molecule, often through non-covalent interactions such as hydrogen bonding, van der Waals forces, or ionic bonds. Once bound, the label then forms a covalent bond with the target molecule, allowing for its isolation and further study.

Affinity labels are commonly used in biochemistry and molecular biology research to identify and characterize specific proteins, enzymes, or receptors. They can be designed to bind to specific active sites, binding pockets, or other functional regions of a protein, allowing researchers to study the structure-function relationships of these molecules.

One example of an affinity label is a substrate analogue that contains a chemically reactive group. This type of affinity label can be used to identify and characterize enzymes by binding to their active sites and forming a covalent bond with the enzyme. The labeled enzyme can then be purified and analyzed to determine its structure, function, and mechanism of action.

Overall, affinity labels are valuable tools for studying the properties and functions of biological molecules in vitro and in vivo.

3',5'-Cyclic guanosine monophosphate (cGMP) phosphodiesterases are a group of enzymes that play a role in regulating the levels of cGMP, an important intracellular signaling molecule involved in various biological processes. These enzymes catalyze the hydrolysis of cGMP to 5'-GMP, thereby terminating cGMP-mediated signals within cells.

There are several isoforms of cGMP phosphodiesterases, which differ in their regulatory properties, substrate specificity, and cellular distribution. These enzymes can be activated or inhibited by various factors, including drugs, hormones, and neurotransmitters, and play a crucial role in modulating the activity of cGMP-dependent signaling pathways in different tissues and organs.

Dysregulation of cGMP phosphodiesterase activity has been implicated in various diseases, including cardiovascular disorders, pulmonary hypertension, neurodegenerative diseases, and cancer. Therefore, these enzymes are considered important targets for the development of novel therapeutic strategies for the treatment of these conditions.

Carbolines are a type of chemical compound that contain a carbazole or dibenzopyrrole structure. These compounds have a variety of uses, including as pharmaceuticals and dyes. Some carbolines have been studied for their potential medicinal properties, such as their ability to act as antioxidants or to inhibit the growth of certain types of cells. However, it is important to note that many carbolines are also known to be toxic and can cause harm if ingested or otherwise introduced into the body. As with any chemical compound, it is essential to use caution when handling carbolines and to follow all safety guidelines to minimize the risk of exposure.

A mutation is a permanent change in the DNA sequence of an organism's genome. Mutations can occur spontaneously or be caused by environmental factors such as exposure to radiation, chemicals, or viruses. They may have various effects on the organism, ranging from benign to harmful, depending on where they occur and whether they alter the function of essential proteins. In some cases, mutations can increase an individual's susceptibility to certain diseases or disorders, while in others, they may confer a survival advantage. Mutations are the driving force behind evolution, as they introduce new genetic variability into populations, which can then be acted upon by natural selection.

Adenosine diphosphate (ADP) is a chemical compound that plays a crucial role in energy transfer within cells. It is a nucleotide, which consists of a adenosine molecule (a sugar molecule called ribose attached to a nitrogenous base called adenine) and two phosphate groups.

In the cell, ADP functions as an intermediate in the conversion of energy from one form to another. When a high-energy phosphate bond in ADP is broken, energy is released and ADP is converted to adenosine triphosphate (ATP), which serves as the main energy currency of the cell. Conversely, when ATP donates a phosphate group to another molecule, it is converted back to ADP, releasing energy for the cell to use.

ADP also plays a role in blood clotting and other physiological processes. In the coagulation cascade, ADP released from damaged red blood cells can help activate platelets and initiate the formation of a blood clot.

'Escherichia coli' (E. coli) is a type of gram-negative, facultatively anaerobic, rod-shaped bacterium that commonly inhabits the intestinal tract of humans and warm-blooded animals. It is a member of the family Enterobacteriaceae and one of the most well-studied prokaryotic model organisms in molecular biology.

While most E. coli strains are harmless and even beneficial to their hosts, some serotypes can cause various forms of gastrointestinal and extraintestinal illnesses in humans and animals. These pathogenic strains possess virulence factors that enable them to colonize and damage host tissues, leading to diseases such as diarrhea, urinary tract infections, pneumonia, and sepsis.

E. coli is a versatile organism with remarkable genetic diversity, which allows it to adapt to various environmental niches. It can be found in water, soil, food, and various man-made environments, making it an essential indicator of fecal contamination and a common cause of foodborne illnesses. The study of E. coli has contributed significantly to our understanding of fundamental biological processes, including DNA replication, gene regulation, and protein synthesis.

Secondary protein structure refers to the local spatial arrangement of amino acid chains in a protein, typically described as regular repeating patterns held together by hydrogen bonds. The two most common types of secondary structures are the alpha-helix (α-helix) and the beta-pleated sheet (β-sheet). In an α-helix, the polypeptide chain twists around itself in a helical shape, with each backbone atom forming a hydrogen bond with the fourth amino acid residue along the chain. This forms a rigid rod-like structure that is resistant to bending or twisting forces. In β-sheets, adjacent segments of the polypeptide chain run parallel or antiparallel to each other and are connected by hydrogen bonds, forming a pleated sheet-like arrangement. These secondary structures provide the foundation for the formation of tertiary and quaternary protein structures, which determine the overall three-dimensional shape and function of the protein.

Niacin, also known as nicotinic acid, is a form of vitamin B3 (B-complex vitamin) that is used by the body to turn food into energy. It is found in various foods including meat, fish, milk, eggs, green vegetables, and cereal grains. Niacin is also available as a dietary supplement and prescription medication.

As a medication, niacin is primarily used to treat high cholesterol levels. It works by reducing the production of LDL (bad) cholesterol in the body and increasing the levels of HDL (good) cholesterol. Niacin can also help lower triglycerides, another type of fat found in the blood.

Niacin is available in immediate-release, sustained-release, and extended-release forms. The immediate-release form can cause flushing of the skin, itching, tingling, and headaches, which can be uncomfortable but are not usually serious. The sustained-release and extended-release forms may have fewer side effects, but they can also increase the risk of liver damage and other serious side effects.

It is important to note that niacin should only be taken under the supervision of a healthcare provider, as it can interact with other medications and have potentially serious side effects.

A chemical model is a simplified representation or description of a chemical system, based on the laws of chemistry and physics. It is used to explain and predict the behavior of chemicals and chemical reactions. Chemical models can take many forms, including mathematical equations, diagrams, and computer simulations. They are often used in research, education, and industry to understand complex chemical processes and develop new products and technologies.

For example, a chemical model might be used to describe the way that atoms and molecules interact in a particular reaction, or to predict the properties of a new material. Chemical models can also be used to study the behavior of chemicals at the molecular level, such as how they bind to each other or how they are affected by changes in temperature or pressure.

It is important to note that chemical models are simplifications of reality and may not always accurately represent every aspect of a chemical system. They should be used with caution and validated against experimental data whenever possible.

An amino acid substitution is a type of mutation in which one amino acid in a protein is replaced by another. This occurs when there is a change in the DNA sequence that codes for a particular amino acid in a protein. The genetic code is redundant, meaning that most amino acids are encoded by more than one codon (a sequence of three nucleotides). As a result, a single base pair change in the DNA sequence may not necessarily lead to an amino acid substitution. However, if a change does occur, it can have a variety of effects on the protein's structure and function, depending on the nature of the substituted amino acids. Some substitutions may be harmless, while others may alter the protein's activity or stability, leading to disease.

Enzyme activation refers to the process by which an enzyme becomes biologically active and capable of carrying out its specific chemical or biological reaction. This is often achieved through various post-translational modifications, such as proteolytic cleavage, phosphorylation, or addition of cofactors or prosthetic groups to the enzyme molecule. These modifications can change the conformation or structure of the enzyme, exposing or creating a binding site for the substrate and allowing the enzymatic reaction to occur.

For example, in the case of proteolytic cleavage, an inactive precursor enzyme, known as a zymogen, is cleaved into its active form by a specific protease. This is seen in enzymes such as trypsin and chymotrypsin, which are initially produced in the pancreas as inactive precursors called trypsinogen and chymotrypsinogen, respectively. Once they reach the small intestine, they are activated by enteropeptidase, a protease that cleaves a specific peptide bond, releasing the active enzyme.

Phosphorylation is another common mechanism of enzyme activation, where a phosphate group is added to a specific serine, threonine, or tyrosine residue on the enzyme by a protein kinase. This modification can alter the conformation of the enzyme and create a binding site for the substrate, allowing the enzymatic reaction to occur.

Enzyme activation is a crucial process in many biological pathways, as it allows for precise control over when and where specific reactions take place. It also provides a mechanism for regulating enzyme activity in response to various signals and stimuli, such as hormones, neurotransmitters, or changes in the intracellular environment.

Nucleotides are the basic structural units of nucleic acids, such as DNA and RNA. They consist of a nitrogenous base (adenine, guanine, cytosine, thymine or uracil), a pentose sugar (ribose in RNA and deoxyribose in DNA) and one to three phosphate groups. Nucleotides are linked together by phosphodiester bonds between the sugar of one nucleotide and the phosphate group of another, forming long chains known as polynucleotides. The sequence of these nucleotides determines the genetic information carried in DNA and RNA, which is essential for the functioning, reproduction and survival of all living organisms.

"Drug design" is the process of creating and developing a new medication or therapeutic agent to treat or prevent a specific disease or condition. It involves identifying potential targets within the body, such as proteins or enzymes that are involved in the disease process, and then designing small molecules or biologics that can interact with these targets to produce a desired effect.

The drug design process typically involves several stages, including:

1. Target identification: Researchers identify a specific molecular target that is involved in the disease process.
2. Lead identification: Using computational methods and high-throughput screening techniques, researchers identify small molecules or biologics that can interact with the target.
3. Lead optimization: Researchers modify the chemical structure of the lead compound to improve its ability to interact with the target, as well as its safety and pharmacokinetic properties.
4. Preclinical testing: The optimized lead compound is tested in vitro (in a test tube or petri dish) and in vivo (in animals) to evaluate its safety and efficacy.
5. Clinical trials: If the preclinical testing is successful, the drug moves on to clinical trials in humans to further evaluate its safety and efficacy.

The ultimate goal of drug design is to create a new medication that is safe, effective, and can be used to improve the lives of patients with a specific disease or condition.

Molecular Dynamics (MD) simulation is a computational method used in the field of molecular modeling and molecular physics. It involves simulating the motions and interactions of atoms and molecules over time, based on classical mechanics or quantum mechanics. In MD simulations, the equations of motion for each atom are repeatedly solved, allowing researchers to study the dynamic behavior of molecular systems, such as protein folding, ligand-protein binding, and chemical reactions. These simulations provide valuable insights into the structural and functional properties of biological macromolecules at the atomic level, and have become an essential tool in modern drug discovery and development.

Substrate specificity in the context of medical biochemistry and enzymology refers to the ability of an enzyme to selectively bind and catalyze a chemical reaction with a particular substrate (or a group of similar substrates) while discriminating against other molecules that are not substrates. This specificity arises from the three-dimensional structure of the enzyme, which has evolved to match the shape, charge distribution, and functional groups of its physiological substrate(s).

Substrate specificity is a fundamental property of enzymes that enables them to carry out highly selective chemical transformations in the complex cellular environment. The active site of an enzyme, where the catalysis takes place, has a unique conformation that complements the shape and charge distribution of its substrate(s). This ensures efficient recognition, binding, and conversion of the substrate into the desired product while minimizing unwanted side reactions with other molecules.

Substrate specificity can be categorized as:

1. Absolute specificity: An enzyme that can only act on a single substrate or a very narrow group of structurally related substrates, showing no activity towards any other molecule.
2. Group specificity: An enzyme that prefers to act on a particular functional group or class of compounds but can still accommodate minor structural variations within the substrate.
3. Broad or promiscuous specificity: An enzyme that can act on a wide range of structurally diverse substrates, albeit with varying catalytic efficiencies.

Understanding substrate specificity is crucial for elucidating enzymatic mechanisms, designing drugs that target specific enzymes or pathways, and developing biotechnological applications that rely on the controlled manipulation of enzyme activities.

Hydrogen bonding is not a medical term per se, but it is a fundamental concept in chemistry and biology that is relevant to the field of medicine. Here's a general definition:

Hydrogen bonding is a type of attractive force between molecules or within a molecule, which occurs when a hydrogen atom is bonded to a highly electronegative atom (like nitrogen, oxygen, or fluorine) and is then attracted to another electronegative atom. This attraction results in the formation of a partially covalent bond known as a "hydrogen bond."

In biological systems, hydrogen bonding plays a crucial role in the structure and function of many biomolecules, such as DNA, proteins, and carbohydrates. For example, the double helix structure of DNA is stabilized by hydrogen bonds between complementary base pairs (adenine-thymine and guanine-cytosine). Similarly, the three-dimensional structure of proteins is maintained by a network of hydrogen bonds that help to determine their function.

In medical contexts, hydrogen bonding can be relevant in understanding drug-receptor interactions, where hydrogen bonds between a drug molecule and its target protein can enhance the binding affinity and specificity of the interaction, leading to more effective therapeutic outcomes.

Uridine Triphosphate (UTP) is a nucleotide that plays a crucial role in the synthesis and repair of DNA and RNA. It consists of a nitrogenous base called uracil, a pentose sugar (ribose), and three phosphate groups. UTP is one of the four triphosphates used in the biosynthesis of RNA during transcription, where it donates its uracil base to the growing RNA chain. Additionally, UTP serves as an energy source and a substrate in various biochemical reactions within the cell, including phosphorylation processes and the synthesis of glycogen and other molecules.

Dimerization is a process in which two molecules, usually proteins or similar structures, bind together to form a larger complex. This can occur through various mechanisms, such as the formation of disulfide bonds, hydrogen bonding, or other non-covalent interactions. Dimerization can play important roles in cell signaling, enzyme function, and the regulation of gene expression.

In the context of medical research and therapy, dimerization is often studied in relation to specific proteins that are involved in diseases such as cancer. For example, some drugs have been developed to target and inhibit the dimerization of certain proteins, with the goal of disrupting their function and slowing or stopping the progression of the disease.

A dose-response relationship in the context of drugs refers to the changes in the effects or symptoms that occur as the dose of a drug is increased or decreased. Generally, as the dose of a drug is increased, the severity or intensity of its effects also increases. Conversely, as the dose is decreased, the effects of the drug become less severe or may disappear altogether.

The dose-response relationship is an important concept in pharmacology and toxicology because it helps to establish the safe and effective dosage range for a drug. By understanding how changes in the dose of a drug affect its therapeutic and adverse effects, healthcare providers can optimize treatment plans for their patients while minimizing the risk of harm.

The dose-response relationship is typically depicted as a curve that shows the relationship between the dose of a drug and its effect. The shape of the curve may vary depending on the drug and the specific effect being measured. Some drugs may have a steep dose-response curve, meaning that small changes in the dose can result in large differences in the effect. Other drugs may have a more gradual dose-response curve, where larger changes in the dose are needed to produce significant effects.

In addition to helping establish safe and effective dosages, the dose-response relationship is also used to evaluate the potential therapeutic benefits and risks of new drugs during clinical trials. By systematically testing different doses of a drug in controlled studies, researchers can identify the optimal dosage range for the drug and assess its safety and efficacy.

Piperidines are not a medical term per se, but they are a class of organic compounds that have important applications in the pharmaceutical industry. Medically relevant piperidines include various drugs such as some antihistamines, antidepressants, and muscle relaxants.

A piperidine is a heterocyclic amine with a six-membered ring containing five carbon atoms and one nitrogen atom. The structure can be described as a cyclic secondary amine. Piperidines are found in some natural alkaloids, such as those derived from the pepper plant (Piper nigrum), which gives piperidines their name.

In a medical context, it is more common to encounter specific drugs that belong to the class of piperidines rather than the term itself.

Recombinant proteins are artificially created proteins produced through the use of recombinant DNA technology. This process involves combining DNA molecules from different sources to create a new set of genes that encode for a specific protein. The resulting recombinant protein can then be expressed, purified, and used for various applications in research, medicine, and industry.

Recombinant proteins are widely used in biomedical research to study protein function, structure, and interactions. They are also used in the development of diagnostic tests, vaccines, and therapeutic drugs. For example, recombinant insulin is a common treatment for diabetes, while recombinant human growth hormone is used to treat growth disorders.

The production of recombinant proteins typically involves the use of host cells, such as bacteria, yeast, or mammalian cells, which are engineered to express the desired protein. The host cells are transformed with a plasmid vector containing the gene of interest, along with regulatory elements that control its expression. Once the host cells are cultured and the protein is expressed, it can be purified using various chromatography techniques.

Overall, recombinant proteins have revolutionized many areas of biology and medicine, enabling researchers to study and manipulate proteins in ways that were previously impossible.

Magnesium is an essential mineral that plays a crucial role in various biological processes in the human body. It is the fourth most abundant cation in the body and is involved in over 300 enzymatic reactions, including protein synthesis, muscle and nerve function, blood glucose control, and blood pressure regulation. Magnesium also contributes to the structural development of bones and teeth.

In medical terms, magnesium deficiency can lead to several health issues, such as muscle cramps, weakness, heart arrhythmias, and seizures. On the other hand, excessive magnesium levels can cause symptoms like diarrhea, nausea, and muscle weakness. Magnesium supplements or magnesium-rich foods are often recommended to maintain optimal magnesium levels in the body.

Some common dietary sources of magnesium include leafy green vegetables, nuts, seeds, legumes, whole grains, and dairy products. Magnesium is also available in various forms as a dietary supplement, including magnesium oxide, magnesium citrate, magnesium chloride, and magnesium glycinate.

Catalysis is the process of increasing the rate of a chemical reaction by adding a substance known as a catalyst, which remains unchanged at the end of the reaction. A catalyst lowers the activation energy required for the reaction to occur, thereby allowing the reaction to proceed more quickly and efficiently. This can be particularly important in biological systems, where enzymes act as catalysts to speed up metabolic reactions that are essential for life.

G-protein-coupled receptors (GPCRs) are a family of membrane receptors that play an essential role in cellular signaling and communication. These receptors possess seven transmembrane domains, forming a structure that spans the lipid bilayer of the cell membrane. They are called "G-protein-coupled" because they interact with heterotrimeric G proteins upon activation, which in turn modulate various downstream signaling pathways.

When an extracellular ligand binds to a GPCR, it causes a conformational change in the receptor's structure, leading to the exchange of guanosine diphosphate (GDP) for guanosine triphosphate (GTP) on the associated G protein's α subunit. This exchange triggers the dissociation of the G protein into its α and βγ subunits, which then interact with various effector proteins to elicit cellular responses.

There are four main families of GPCRs, classified based on their sequence similarities and downstream signaling pathways:

1. Gq-coupled receptors: These receptors activate phospholipase C (PLC), which leads to the production of inositol trisphosphate (IP3) and diacylglycerol (DAG). IP3 induces calcium release from intracellular stores, while DAG activates protein kinase C (PKC).
2. Gs-coupled receptors: These receptors activate adenylyl cyclase, which increases the production of cyclic adenosine monophosphate (cAMP) and subsequently activates protein kinase A (PKA).
3. Gi/o-coupled receptors: These receptors inhibit adenylyl cyclase, reducing cAMP levels and modulating PKA activity. Additionally, they can activate ion channels or regulate other signaling pathways through the βγ subunits.
4. G12/13-coupled receptors: These receptors primarily activate RhoGEFs, which in turn activate RhoA and modulate cytoskeletal organization and cellular motility.

GPCRs are involved in various physiological processes, including neurotransmission, hormone signaling, immune response, and sensory perception. Dysregulation of GPCR function has been implicated in numerous diseases, making them attractive targets for drug development.

A drug interaction is the effect of combining two or more drugs, or a drug and another substance (such as food or alcohol), which can alter the effectiveness or side effects of one or both of the substances. These interactions can be categorized as follows:

1. Pharmacodynamic interactions: These occur when two or more drugs act on the same target organ or receptor, leading to an additive, synergistic, or antagonistic effect. For example, taking a sedative and an antihistamine together can result in increased drowsiness due to their combined depressant effects on the central nervous system.
2. Pharmacokinetic interactions: These occur when one drug affects the absorption, distribution, metabolism, or excretion of another drug. For example, taking certain antibiotics with grapefruit juice can increase the concentration of the antibiotic in the bloodstream, leading to potential toxicity.
3. Food-drug interactions: Some drugs may interact with specific foods, affecting their absorption, metabolism, or excretion. An example is the interaction between warfarin (a blood thinner) and green leafy vegetables, which can increase the risk of bleeding due to enhanced vitamin K absorption from the vegetables.
4. Drug-herb interactions: Some herbal supplements may interact with medications, leading to altered drug levels or increased side effects. For instance, St. John's Wort can decrease the effectiveness of certain antidepressants and oral contraceptives by inducing their metabolism.
5. Drug-alcohol interactions: Alcohol can interact with various medications, causing additive sedative effects, impaired judgment, or increased risk of liver damage. For example, combining alcohol with benzodiazepines or opioids can lead to dangerous levels of sedation and respiratory depression.

It is essential for healthcare providers and patients to be aware of potential drug interactions to minimize adverse effects and optimize treatment outcomes.

Biological models, also known as physiological models or organismal models, are simplified representations of biological systems, processes, or mechanisms that are used to understand and explain the underlying principles and relationships. These models can be theoretical (conceptual or mathematical) or physical (such as anatomical models, cell cultures, or animal models). They are widely used in biomedical research to study various phenomena, including disease pathophysiology, drug action, and therapeutic interventions.

Examples of biological models include:

1. Mathematical models: These use mathematical equations and formulas to describe complex biological systems or processes, such as population dynamics, metabolic pathways, or gene regulation networks. They can help predict the behavior of these systems under different conditions and test hypotheses about their underlying mechanisms.
2. Cell cultures: These are collections of cells grown in a controlled environment, typically in a laboratory dish or flask. They can be used to study cellular processes, such as signal transduction, gene expression, or metabolism, and to test the effects of drugs or other treatments on these processes.
3. Animal models: These are living organisms, usually vertebrates like mice, rats, or non-human primates, that are used to study various aspects of human biology and disease. They can provide valuable insights into the pathophysiology of diseases, the mechanisms of drug action, and the safety and efficacy of new therapies.
4. Anatomical models: These are physical representations of biological structures or systems, such as plastic models of organs or tissues, that can be used for educational purposes or to plan surgical procedures. They can also serve as a basis for developing more sophisticated models, such as computer simulations or 3D-printed replicas.

Overall, biological models play a crucial role in advancing our understanding of biology and medicine, helping to identify new targets for therapeutic intervention, develop novel drugs and treatments, and improve human health.

Hydrogen-ion concentration, also known as pH, is a measure of the acidity or basicity of a solution. It is defined as the negative logarithm (to the base 10) of the hydrogen ion activity in a solution. The standard unit of measurement is the pH unit. A pH of 7 is neutral, less than 7 is acidic, and greater than 7 is basic.

In medical terms, hydrogen-ion concentration is important for maintaining homeostasis within the body. For example, in the stomach, a high hydrogen-ion concentration (low pH) is necessary for the digestion of food. However, in other parts of the body such as blood, a high hydrogen-ion concentration can be harmful and lead to acidosis. Conversely, a low hydrogen-ion concentration (high pH) in the blood can lead to alkalosis. Both acidosis and alkalosis can have serious consequences on various organ systems if not corrected.

An amide is a functional group or a compound that contains a carbonyl group (a double-bonded carbon atom) and a nitrogen atom. The nitrogen atom is connected to the carbonyl carbon atom by a single bond, and it also has a lone pair of electrons. Amides are commonly found in proteins and peptides, where they form amide bonds (also known as peptide bonds) between individual amino acids.

The general structure of an amide is R-CO-NHR', where R and R' can be alkyl or aryl groups. Amides can be classified into several types based on the nature of R and R' substituents:

* Primary amides: R-CO-NH2
* Secondary amides: R-CO-NHR'
* Tertiary amides: R-CO-NR''R'''

Amides have several important chemical properties. They are generally stable and resistant to hydrolysis under neutral or basic conditions, but they can be hydrolyzed under acidic conditions or with strong bases. Amides also exhibit a characteristic infrared absorption band around 1650 cm-1 due to the carbonyl stretching vibration.

In addition to their prevalence in proteins and peptides, amides are also found in many natural and synthetic compounds, including pharmaceuticals, dyes, and polymers. They have a wide range of applications in chemistry, biology, and materials science.

I believe there may be some confusion in your question. "Rabbits" is a common name used to refer to the Lagomorpha species, particularly members of the family Leporidae. They are small mammals known for their long ears, strong legs, and quick reproduction.

However, if you're referring to "rabbits" in a medical context, there is a term called "rabbit syndrome," which is a rare movement disorder characterized by repetitive, involuntary movements of the fingers, resembling those of a rabbit chewing. It is also known as "finger-chewing chorea." This condition is usually associated with certain medications, particularly antipsychotics, and typically resolves when the medication is stopped or adjusted.

Cyclic guanosine monophosphate (cGMP) is a important second messenger molecule that plays a crucial role in various biological processes within the human body. It is synthesized from guanosine triphosphate (GTP) by the enzyme guanylyl cyclase.

Cyclic GMP is involved in regulating diverse physiological functions, such as smooth muscle relaxation, cardiovascular function, and neurotransmission. It also plays a role in modulating immune responses and cellular growth and differentiation.

In the medical field, changes in cGMP levels or dysregulation of cGMP-dependent pathways have been implicated in various disease states, including pulmonary hypertension, heart failure, erectile dysfunction, and glaucoma. Therefore, pharmacological agents that target cGMP signaling are being developed as potential therapeutic options for these conditions.

Sequence homology, amino acid, refers to the similarity in the order of amino acids in a protein or a portion of a protein between two or more species. This similarity can be used to infer evolutionary relationships and functional similarities between proteins. The higher the degree of sequence homology, the more likely it is that the proteins are related and have similar functions. Sequence homology can be determined through various methods such as pairwise alignment or multiple sequence alignment, which compare the sequences and calculate a score based on the number and type of matching amino acids.

Aspartate carbamoyltransferase (ACT) is a crucial enzyme in the urea cycle, which is the biochemical pathway responsible for the elimination of excess nitrogen waste from the body. This enzyme catalyzes the second step of the urea cycle, where it facilitates the transfer of a carbamoyl group from carbamoyl phosphate to aspartic acid, forming N-acetylglutamic semialdehyde and releasing phosphate in the process.

The reaction catalyzed by aspartate carbamoyltransferase is as follows:

Carbamoyl phosphate + L-aspartate → N-acetylglutamic semialdehyde + P\_i + CO\_2

This enzyme plays a critical role in maintaining nitrogen balance and preventing the accumulation of toxic levels of ammonia in the body. Deficiencies or mutations in aspartate carbamoyltransferase can lead to serious metabolic disorders, such as citrullinemia and hyperammonemia, which can have severe neurological consequences if left untreated.

Disulfides are a type of organic compound that contains a sulfur-sulfur bond. In the context of biochemistry and medicine, disulfide bonds are often found in proteins, where they play a crucial role in maintaining their three-dimensional structure and function. These bonds form when two sulfhydryl groups (-SH) on cysteine residues within a protein molecule react with each other, releasing a molecule of water and creating a disulfide bond (-S-S-) between the two cysteines. Disulfide bonds can be reduced back to sulfhydryl groups by various reducing agents, which is an important process in many biological reactions. The formation and reduction of disulfide bonds are critical for the proper folding, stability, and activity of many proteins, including those involved in various physiological processes and diseases.

Zinc is an essential mineral that is vital for the functioning of over 300 enzymes and involved in various biological processes in the human body, including protein synthesis, DNA synthesis, immune function, wound healing, and cell division. It is a component of many proteins and participates in the maintenance of structural integrity and functionality of proteins. Zinc also plays a crucial role in maintaining the sense of taste and smell.

The recommended daily intake of zinc varies depending on age, sex, and life stage. Good dietary sources of zinc include red meat, poultry, seafood, beans, nuts, dairy products, and fortified cereals. Zinc deficiency can lead to various health problems, including impaired immune function, growth retardation, and developmental delays in children. On the other hand, excessive intake of zinc can also have adverse effects on health, such as nausea, vomiting, and impaired immune function.

A cell line is a culture of cells that are grown in a laboratory for use in research. These cells are usually taken from a single cell or group of cells, and they are able to divide and grow continuously in the lab. Cell lines can come from many different sources, including animals, plants, and humans. They are often used in scientific research to study cellular processes, disease mechanisms, and to test new drugs or treatments. Some common types of human cell lines include HeLa cells (which come from a cancer patient named Henrietta Lacks), HEK293 cells (which come from embryonic kidney cells), and HUVEC cells (which come from umbilical vein endothelial cells). It is important to note that cell lines are not the same as primary cells, which are cells that are taken directly from a living organism and have not been grown in the lab.

Enzyme inhibitors are substances that bind to an enzyme and decrease its activity, preventing it from catalyzing a chemical reaction in the body. They can work by several mechanisms, including blocking the active site where the substrate binds, or binding to another site on the enzyme to change its shape and prevent substrate binding. Enzyme inhibitors are often used as drugs to treat various medical conditions, such as high blood pressure, abnormal heart rhythms, and bacterial infections. They can also be found naturally in some foods and plants, and can be used in research to understand enzyme function and regulation.

Using these structural insights, we developed PHI1, a BRAF inhibitor that fully uncovers the allosteric site. PHI1 exhibits ... 5: Targeting the allosteric site in BRAF with PHI1.. Comparison of binding modes of PON (a) and PHI1 (b) with BRAFV600E in ... Cotto-Rios, X.M., Agianian, B., Gitego, N. et al. Inhibitors of BRAF dimers using an allosteric site. Nat Commun 11, 4370 (2020 ... Inhibitors of BRAF dimers using an allosteric site. *Xiomaris M. Cotto-Rios ORCID: orcid.org/0000-0003-0922-18571,2 na1, ...
Traditionally, optimizing the interaction of lead molecules with the binding site for the endogenous agonist (orthosteric site ... known as allosteric sites. Allosteric modulators could offer several advantages over orthosteric ligands, including greater ... Allosteric binding sites on cell-surface receptors: novel targets for drug discovery Nat Rev Drug Discov. 2002 Mar;1(3):198-210 ... Traditionally, optimizing the interaction of lead molecules with the binding site for the endogenous agonist (orthosteric site ...
By querying the literature and a recently available database of allosteric sites, we gathered 213 allosteric proteins with ... We introduce a simple computational approach to predict the presence and position of allosteric sites in a protein based on the ... A first step to harness the regulatory potential and versatility of allosteric sites, in the context of drug-discovery and ... Furthermore, we implemented an approach that achieves 65% positive predictive value in identifying allosteric sites within the ...
Identification of Positive Allosteric Modulators of the D1 Dopamine Receptor that act at diverse binding sites. Thursday, ... Together, MLS1082 and MLS6585 may serve as important tool compounds for the characterization of diverse allosteric sites on D1R ... Positive allosteric modulators (PAMs), with their potential for greater selectivity and larger therapeutic windows, may ... suggesting diverse sites of action. In addition, MLS6585, but not MLS1082, had additive activity with the previously described ...
Discovery of an Allosteric Inhibitor Binding Site in 3-Oxo-acyl-ACP Reductase from Pseudomonas aeruginosa. ACS Chemical Biology ... Discovery of an Allosteric Inhibitor Binding Site in 3-Oxo-acyl-ACP Reductase from Pseudomonas aeruginosa. In: ACS Chemical ... Discovery of an Allosteric Inhibitor Binding Site in 3-Oxo-acyl-ACP Reductase from Pseudomonas aeruginosa. / Cukier, Cyprian D ... Discovery of an Allosteric Inhibitor Binding Site in 3-Oxo-acyl-ACP Reductase from Pseudomonas aeruginosa. ...
Allosteric Regulation / drug effects * Allosteric Site / drug effects * Crystallography, X-Ray * Drug Partial Agonism ... a previously described positive allosteric nanobody (Nb80) and a newly identified negative allosteric nanobody (Nb60). We show ... Allosteric nanobodies reveal the dynamic range and diverse mechanisms of G-protein-coupled receptor activation Nature. 2016 Jul ... highlighting the full allosteric range of a GPCR. Assessing the binding of 17 ligands of varying efficacy to the β2AR in the ...
The site to which the effector binds is termed the allosteric site. Allosteric sites allow effectors to bind to the protein, ... The binding sites for heterotropic effectors, called allosteric sites, are usually separate from the active site yet ... This is in reference to the fact that the regulatory site of an allosteric protein is physically distinct from its active site ... In biochemistry, allosteric regulation (or allosteric control) is the regulation of a protein by binding an effector molecule ...
Definition of allosteric binding sites. 1) Allosteric binding sites are contained in many enzymes and receptors. As a ... Home · About · Contact · Sponsors · Privacy Chemistry-Dictionary.com · Copyright © 2015, All Rights Reserved ... consequence of the binding to Allosteric binding sites, the interaction with the normal ligand may be either enhanced or ...
DeWolf, W. E. ; Markham, G. D. ; Schramm, V. L. / Evidence of substantial separation of the catalytic and allosteric sites of ... Evidence of substantial separation of the catalytic and allosteric sites of AMP nucleosidase. / DeWolf, W. E.; Markham, G. D.; ... DeWolf, WE, Markham, GD & Schramm, VL 1980, Evidence of substantial separation of the catalytic and allosteric sites of AMP ... Evidence of substantial separation of the catalytic and allosteric sites of AMP nucleosidase. Journal of Biological Chemistry. ...
... Jennifer L. Busch1,*. , Thomas M. Bridges2. , Robyn ... Catalytic site amino acids of PKGI-alpha influence allosteric cGMP binding. Front. Biosci. (Schol Ed) 2013, 5(2), 650-660. ... By using this website, you agree to our Terms & Conditions, Terms & Use and Privacy Policy. Disclaimer ... We use cookies on our website to ensure you get the best experience.. Read more about our cookies here Accept ...
X-ray screening identifies active site and allosteric inhibitors of SARS-CoV-2 main protease ... 2021). X-ray screening identifies active site and allosteric inhibitors of SARS-CoV-2 main protease. Science, 372(6542), 642- ... We identified two allosteric binding sites representing attractive targets for drug development against SARS-CoV-2. ... X-ray screening identifies active site and allosteric inhibitors of SARS-CoV-2 main protease ...
A model of an allosteric enzyme catalyzing a biochemical reaction. ... because allosteric sites can be a prime drug target. First, drugs targeting allosteric sites can modulate the structure of ... Allosteric regulation is a prime drug target because it reduces the risk of overdose and side effects and can be used to fine- ... This method of analysis is useful when aiming to understand the properties of allosteric regulation. If ATP is increased, does ...
2021). Discovery of cryptic allosteric sites using reversed allosteric communication by a combined computational and ... The coordination numbers of water molecules for the Ca2+ in the CS1 (A), CS2 (B), NS1 (C), and NS2 (D) binding sites in the Ca ... The detailed coordination interactions for the Ca2+ in the CS1 (A), CS2 (B), NS1 (C), and NS2 (D) binding sites in the Ca2+- ... Computational elucidation of allosteric communication in proteins for allosteric drug design. Drug Discov. Today 27, 2226-2234 ...
Mapping of the Allosteric Site in Cholesterol Hydroxylase CYP46A1 for Efavirenz, a Drug That Stimulates Enzyme Activity. April ... Official websites use .gov A .gov website belongs to an official government organization in the United States. ... or https:// means youve safely connected to the .gov website. Share sensitive information only on official, secure websites. ... Secure .gov websites use HTTPS A lock ( ... An official website of the United States government. Heres how ...
CASBench is a set of 91 proteins which have both catalytic and allosteric sites in their structures annotated according to the ... and allosteric sites, the evolution of their amino acid sequences in protein families, and allosteric communication pathways, ... The CASBench set describes 91 enzymes which have both catalytic and allosteric sites annotated in their structures according to ... a benchmarking set of proteins with catalytic and allosteric sites annotated in their structures. Acta Naturae, 11, 1(40), 74- ...
Negative Allosteric Modulation of Gamma-Aminobutyric Acid A Receptors at α5 Subunit-Containing Benzodiazepine Sites Reverses ... Negative Allosteric Modulation of Gamma-Aminobutyric Acid A Receptors at α5 Subunit-Containing Benzodiazepine Sites Reverses ... Negative Allosteric Modulation of Gamma-Aminobutyric Acid A Receptors at α5 Subunit-Containing Benzodiazepine Sites Reverses ... Negative Allosteric Modulation of Gamma-Aminobutyric Acid A Receptors at α5 Subunit-Containing Benzodiazepine Sites Reverses ...
In this work, we propose prospective allosteric inhibitors that target the allosteric site, SARS-CoV-2 MTase. Four drug ... In this work, we propose prospective allosteric inhibitors that target the allosteric site, SARS-CoV-2 MTase. Four drug ... In this work, we propose prospective allosteric inhibitors that target the allosteric site, SARS-CoV-2 MTase. Four drug ... In this work, we propose prospective allosteric inhibitors that target the allosteric site, SARS-CoV-2 MTase. Four drug ...
... crystal structure of Kaposis sarcoma-associated herpesvirus protease in complex with allosteric inhibitor (compound 733) ... we sought to dissect a putative allosteric network linking a cryptic site at the dimerization interface to enzyme function. ... Our website will not work properly. Please update to a newer version or download a new web browser, such as Chrome or Firefox. ... Finally, a representative allosteric inhibitor from this class was shown to be efficacious in a cellular model of viral ...
... and effector-binding sites. To find binding sites in allosteric enzymes, many ... ... A geometry-based generic predictor for catalytic and allosteric sites  Mitternacht, Simon; Berezovsky, Igor N. (Peer reviewed ... The Genomic HyperBrowser: an analysis web server for genome-scale data  Sandve, Geir Kjetil; Gundersen, Sveinung; Johansen, ...
... one of the classic prototypical ligands that binds to the orthosteric Sig1R binding site. Sig1R is an endoplasmic reticulum ... This review will focus on the description of selective and non-selective allosteric modulators of Sig1R, including molecular ... Different experimental approaches have been used to describe and validate the activity of allosteric modulators of Sig1R. Sig1R ... Different experimental approaches have been used to describe and validate the activity of allosteric modulators of Sig1R. Sig1R ...
PDK1 mutant bound to allosteric disulfide fragment inhibitor 1F8 ... allosteric sites on kinases and that a single allosteric site ... Turning a protein kinase on or off from a single allosteric site via disulfide trapping.. Sadowsky, J.D., Burlingame, M.A., ... Our website will not work properly. Please update to a newer version or download a new web browser, such as Chrome or Firefox. ... There is significant interest in identifying and characterizing allosteric sites in enzymes such as protein kinases both for ...
They tested the functionality of the program by inputting the genetic data from 20 proteins with known allosteric sites to see ... "Drugs designed to target specific allosteric sites on a protein of interest can hopefully avoid side effects caused by drugs ... Results from the analysis, published in Nature Communications, showed that Ohm identified many of the same allosteric sites as ... "Researchers around the world can use Ohm to predict allosteric sites and pathways in their protein of interest," Wang said. " ...
... the inhibitor will bind to an enzyme at its allosteric site; therefore, the binding affinity, or inverse of KM, of the ... As larger amounts of substrate are added to a reaction, the available enzyme binding sites become filled to the limit of V. max ... with binding of substrate to one active site altering the affinity of the other active sites for substrate molecules. Positive ... Alternatively, the observation of a strong pH effect on Vmax but not KM might indicate that a residue in the active site needs ...
Feedback site. Allosteric site. Allosteric inhibitor ... increase the rate of chemical reactions. decrease the activation ... The Active Site ... Temperatures that are too high denature organic molecules, so what else is there? ... Only the active site ... Home About Us Terms and Conditions Privacy Policy Contact Us Copyright 2023 CrystalGraphics, Inc. - All rights Reserved. ... ENZYMES - Temperatures that are too high denature organic molecules, so what else is there? ... Only the active site of the ...
Binding site in blue, substrate in black, inhibitor in green, and allosteric site in light green. ... Alternatively, the inhibitor can bind to a site remote from the enzyme active site. These are known as allosteric ("alternative ... Competitive inhibitors usually bind to the active site. Non-competitive bind to a remote (allosteric) site. Uncompetitive ... This results from the active site containing two different binding sites within the active site, one for each substrate. For ...
I binds to free E or ES complex at the allosteric I site. I binding causes a change in conformation which interferes with ... Increase Vo by binding to an allosteric activator site that causes a change in conformation that promotes ENZ and S ... I and S compete for active site, where I looks like S. Comp. I increases the Km for a S, but it can be reversed by high levels ... Extra A.A. serve as a scaffold to create a 3-D active site from a few key A.A that are far apart in primary structure. ...

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