Sequential binding

Figure 8. The most common enzyme mechanisms, represented by their corresponding Cleland plots The order in which substrates and products bind and dissociate from the enzyme is indicated by arrows, (a) The Random Bi Bi Mechanism-. Both substrates bind in random order, (b) The Ordered Sequential Bi Bi Mechanism-. The substrates bind sequentially, (c) The Ping Pong Mechanism-. The enzyme exists in different states E and E. A substrate may transfer a chemical group to the enzyme. Only upon release of the first substrate, the chemical group is transferred to the second substrate.

Calculations. It has not been established whether all bZIP proteins bind DNA as pre-assembled dimers in a single step or whether two protein monomers bind sequentially with dimerization occurring on the DNA. If dimerization precedes DNA binding, the binding reaction will be described by scheme 1 ... 

O2 molecules bind sequentially to Hb with binding constants Kw to Kb4, and you can see that each O2 binds more tightly than the last. The differences in Kb cannot be explained on the basis that each subunit has a different binding constant if this was the case the subunit with the highest Kb would bind first, in practice it binds last (Fig. 6.14). 

The overall Na-K ATPase reaction leads to the hydrolysis of ATP to ADP and inorganic phosphate and transport of 3 Na ions to the extracellular compartment coupled to transport of 2 K ions to the intracellular compartment per molecule of ATP split. This reaction is under control of the ligands, which bind to the ATPase molecule and are involved in its hydrolytic action and transport function ATP, Mg, Na and. Although binding of the various ligands at their respective intra- and extracellular sites would seem to occur simultaneously [8], we shall for the sake of clarity treat their binding sequentially with the corresponding step of the reaction mechanism. 

Two important features of cholesterol-a-synudein interactions warrant mention here. First, the CRAC and the tilted /fusogenic domains have opposite orientations in the a-helical membrane-boimd conformation of a-synuclein (Fig. 10.7). Thus a-synuclein cannot interact simultaneously with both cholesterol molecules. If both molecules are involved in the insertion of a-synuclein in cholesterol-rich membrane, the protein binds sequentially to one... 

Block copolymers are closer to blends of homopolymers in properties, but without the latter s tendency to undergo phase separation. As a matter of fact, diblock copolymers can be used as surfactants to bind immiscible homopolymer blends together and thus improve their mechanical properties. Block copolymers are generally prepared by sequential addition of monomers to living polymers, rather than by depending on the improbable rjr2 > 1 criterion in monomers. 

Cellular protein biosynthesis involves the following steps. One strand of double-stranded DNA serves as a template strand for the synthesis of a complementary single-stranded messenger ribonucleic acid (mRNA) in a process called transcription. This mRNA in turn serves as a template to direct the synthesis of the protein in a process called translation. The codons of the mRNA are read sequentially by transfer RNA (tRNA) molecules, which bind specifically to the mRNA via triplets of nucleotides that are complementary to the particular codon, called an anticodon. Protein synthesis occurs on a ribosome, a complex consisting of more than 50 different proteins and several stmctural RNA molecules, which moves along the mRNA and mediates the binding of the tRNA molecules and the formation of the nascent peptide chain. The tRNA molecule carries an activated form of the specific amino acid to the ribosome where it is added to the end of the growing peptide chain. There is at least one tRNA for each amino acid. 

The behavior of elements (toxicity, bioavailability, and distribution) in the environment depends strongly on their chemical forms and type of binding and cannot be reliably predicted on the basis of the total concentration. In order to assess the mobility and reactivity of heavy metal (HM) species in solid samples (soils and sediments), batch sequential extraction procedures are used. HM are fractionated into operationally defined forms under the action of selective leaching reagents. 

This concerted model assumes furthermore that the symmetry of the molecule is conserved so that the activity of all its subunits is either equally low or equally high, that is, all structural changes are concerted. Subsequently Daniel Koshland, University of California, Berkeley, postulated a sequential model in which each subunit is allowed independently to change its tertiary structure on substrate binding. In this model tertiary structural changes in the subunit with bound ligand alter the interactions of this... 

Although the first all-sulfur macrocycles were prepared many years ago " the first systematic study of such compounds was initiated by Busch and his coworkers , who were interested in the cation binding properties of such ligands. A sequential synthesis was utilized to produce 1,4,8,11-tetrathiacyclotetradecane [tetrathia-14-crown-4 (70)] . In the first step, 1,3-propanedithiol is metallated using sodium and alkylated with 2-chloroethanol. The diol was then treated with thiourea to form the dimercapto-dithioether compound 9. The latter was once again metallated with sodium and allowed to react with 1,3-dibromopropane. The yield of 70 in the ring closure step, conducted at high dilution in absolute ethanol, was 7.5% after recrystallization. The entire sequence is illustrated in Eq. (6.8) . ... 

Vertessy, B. G., Orosz, F., Kovacs, J., and Ovadi, J., 1997. Alternative binding of two sequential glycolytic enzymes to microtnbnles. Molecnlar studies in the phosphofrnctokinase/aldolase/microtnbnle Journal of... 

The metabolic breakdown of triacylglycerols begins with their hydrolysis to yield glycerol plus fatty acids. The reaction is catalyzed by a lipase, whose mechanism of action is shown in Figure 29.2. The active site of the enzyme contains a catalytic triad of aspartic acid, histidine, and serine residues, which act cooperatively to provide the necessary acid and base catalysis for the individual steps. Hydrolysis is accomplished by two sequential nucleophilic acyl substitution reactions, one that covalently binds an acyl group to the side chain -OH of a serine residue on the enzyme and a second that frees the fatty acid from the enzyme. 

General or basic transcription factors are required for every gene to allow the proper recruitment of RNA polymerases to ensure transcriptional activity. They bind to core promoters in the vicinity of transcriptional start sites in a sequential manner. 

A 17 amino acid long peptide sequentially related to opioid peptides in particular dynorphin A. OFQ/N is inactive at the 5, k, and p opioid receptors, but binds to its own NOP receptor (formerly ORL-1, for opioid receptor like-1). In contrast to opioid peptides, OFQ/N has no direct analgesic properties. OFQ/N is the first example for the discovery of a novel neurotransmitter from tissue extracts by using an orphan receptor as bait. Centrally administered in rodents, OFQ/N exerts anxiolytic properties. OFQ/N agonists and antagonists... 

In their search for new hgands with a very high binding affinity for the nicotinic acetylchohne receptor (nAChR), potentially useful in positron emission tomography (PET) when radiolabeled with [ F], Horti et al. described the synthesis of BOC-protected 5-(azetidin-2-ylmethoxy)-2-chloro-6 -fluoro-3,3 -bipyridine via a sequential classical heating and microwave irradiation of (2-fluoro-5-pyridinyl)(trimethyl)stannane with f-butyl 2- [(6-chloro-5-... 

The one-electron reduction of the Ni-C form results in the diamagnetic species Ni-R. From the redox titration studies of Lindahl s group, a plausible catalytic cycle can be postulated where the enzyme in the Ni-Sl state binds H2 (77) and becomes the two-electron more reduced Ni-R state. Sequential one-electron oxidations from Ni-R to Ni-C and then to Ni-Sl will close the cycle (Fig. 6). The various redox states differ not only in the extent of their reduction, but also in their protonation, as shown by the pH dependence of their redox potentials (87). It is remarkable that both EPR (which monitors the magnetic... 

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