Forty years ago, a simple model of allosteric mechanisms (indirect interactions between distinct sites), used initially to explain feedback-inhibited enzymes, was presented by Monod, Wyman, and Changeux. We review the MWC theory and its applications for the understanding of signal transduction in biology, and also identify remaining issues that deserve theoretical and experimental substantiation.

Exactly 50 years ago, biochemists raised the question of the mechanism of the conformational change that mediates “allosteric” interactions between regulatory sites and biologically active sites in regulatory/receptor proteins. Do the different conformations involved already exist spontaneously in the absence of the regulatory ligands (Monod-Wyman-Changeux), such that the complementary protein conformation would be selected to mediate signal transduction, or do particular ligands induce the receptor to adopt the conformation best suited to them (Koshland-Nemethy-Filmer—induced fit)? This is not just a central question for biophysics, it also has enormous importance for drug design. Recent advances in techniques have allowed detailed experimental and theoretical comparisons with the formal models of both scenarios. Also, it has been shown that mutated receptors can adopt constitutively active confirmations in the absence of ligand. There have also been demonstrations that the atomic resolution structures of the same protein are essentially the same whether ligand is bound or not. These and other advances in past decades have produced a situation where the vast majority of the data using different categories of regulatory proteins (including regulatory enzymes, ligand-gated ion channels, G protein-coupled receptors, and nuclear receptors) support the conformational selection scheme of signal transduction.

the presence of several identical subunits assembled Jean-Pierre Changeux* and Stuart J. Edelstein † into a cooperative and symmetrical quaternary struc-Neurobiologie Mole ´culaire ture. Moreover, the conformational transition that such Institut Pasteur protein assemblies undergo was thought to affect pri-75724 Paris Cedex 15 marily the quaternary interactions between subunits, France rather than the tertiary folding within each individual subunit. In other words, the cooperative interactions The concept of allosteric proteins was initially proposed between ligand binding sites would result from the coopto account for paradoxical properties exhibited by cererative transition of the quaternary structure of the moletain bacterial enzymes that catalyze strategic reactions cule. Accordingly, the symmetry properties postulated in biosynthetic pathways. The activity of these enzymes by the model would simply express a characteristic regwas found to be selectively feedback inhibited by the ularity of protein quaternary structure. end product of the pathway, despite its very limited struc-Specifically, the MWC model hypothesizes that: (1) tural resemblance to the substrate (Umbarger, 1956; regulatory proteins in general are oligomers made up of Yates and Pardee, 1956). Subsequently, various in vitro a finite number of identical subunits that occupy equivalent positions and as a consequence possess at least chemical treatments or mutations were found that abolone axis of rotational symmetry (Figure 1A); (2) the alloished the interactions between substrate and regulatory steric oligomers can spontaneously exist in a minimum effector, with little or no loss of activity (Changeux, 1961; of two freely interconvertible and discrete conforma-Gerhart and Pardee, 1962). These observations led to tional states (T R) that differ in the energy of their the proposal that the interactions between both classes intersubunit interactions (quaternary constraint), but of ligand do not result from classical mutual exclusion with conserved molecular symmetry; (3) the affinity and by steric hindrance at a common binding site, but rather activity of the stereospecific sites carried by the oligooccur between topographically and stereochemically mers may differ between the two states, and ligand distinct sites (Changeux, 1961; Monod and Jacob, 1961). binding differentially stabilizes the particular state for The binding of the regulatory ligand to a specific allostewhich it exhibits a higher affinity; and (4) in the absence ric site (Monod and Jacob, 1961), structurally distinct of ligand, the preexisting conformational equilibrium is from the active site, brings about a reversible alteration characterized by an isomerization constant L ϭ (T)/(R), of the conformation of the protein, an allosteric transiand modulation of the conformational equilibrium by tion, that indirectly modifies the properties of the biologiligand binding suffices to generate cooperative ligand cally active site (Monod et al., 1963). This indirect action binding, as well as...

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The standard model of eukaryotic ribosomal RNA (rRNA) genes involves tandem arrays with hundreds of units in clusters, the nucleolus organizer regions (NORs). A first genomic overview for human cells is reported here for these regions, which have never been sequenced in their totality, by using molecular combing. The rRNA-coding regions are examined by fluorescence on single molecules of DNA with two specific probes that cover their entire length. The standard organization assumed for rDNA units is a transcribed region followed by a nontranscribed spacer. While we confirmed this arrangement in many cases, unorthodox patterns were also observed in normal individuals, with one-third of the rDNA units rearranged to form apparently palindromic structures (noncanonical units) independent of the age of the donors. In cells from individuals with a deficiency in the WRN RecQ helicase (Werner syndrome), the proportion of palindromes increased to one-half. These findings, supported by Southern blot analyses, show that rRNA genes are a mosaic of canonical and (presumably nonfunctional) palindromic units that may be altered by factors associated with genomic instability and pathology.

Nicotinic acetylcholine receptors are transmembrane oligomeric proteins that mediate interconversions between open and closed channel states under the control of neurotransmitters. Fast in vitro chemical kinetics and in vivo electrophysiological recordings are consistent with the following multi-step scheme. Upon binding of agonists, receptor molecules in the closed but activatable resting state (the Basal state, B) undergo rapid transitions to states of higher affinities with either open channels (the Active state, A) or closed channels (the initial Inactivatable and fully Desensitized states, I and D). In order to represent the functional properties of such receptors, we have developed a kinetic model that links conformational interconversion rates to agonist binding and extends the general principles of the Monod-Wyman-Changeux model of allosteric transitions. The crucial assumption is that the linkage is controlled by the position of the interconversion transition states on a hypothetical linear reaction coordinate. Application of the model to the peripheral nicotine acetylcholine receptor (nAChR) accounts for the main properties of ligand-gating, including single-channel events, and several new relationships are predicted. Kinetic simulations reveal errors inherent in using the dose-response analysis, but justify its application under defined conditions. The model predicts that (in order to overcome the intrinsic stability of the B state and to produce the appropriate cooperativity) channel activation is driven by an A state with a Kd in the 50 nM range, hence some 140-fold stronger than the apparent affinity of the open state deduced previously. According to the model, recovery from the desensitized states may occur via rapid transit through the A state with minimal channel opening, thus without necessarily undergoing a distinct recovery pathway, as assumed in the standard 'cycle' model. Transitions to the desensitized states by low concentration 'pre-pulses' are predicted to occur without significant channel opening, but equilibrium values of IC50 can be obtained only with long pre-pulse times. Predictions are also made concerning allosteric effectors and their possible role in coincidence detection. In terms of future developments, the analysis presented here provides a physical basis for constructing more biologically realistic models of synaptic modulation that may be applied to artificial neural networks.

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Neurotransmitters such as acetylcholine (ACh) and glycine mediate fast synaptic neurotransmission by activating pentameric ligandgated ion channels (LGICs). These receptors are allosteric transmembrane proteins that rapidly convert chemical messages into electrical signals. Neurotransmitters activate LGICs by interacting with an extracellular agonist-binding domain (ECD), triggering a tertiary͞quaternary conformational change in the protein that results in the fast opening of an ion pore domain (IPD). However, the molecular mechanism that determines the fast opening of LGICs remains elusive. Here, we show by combining whole-cell and single-channel recordings of recombinant chimeras between the ECD of ␣7 nicotinic receptor (nAChR) and the IPD of the glycine receptor (GlyR) that only two GlyR amino acid residues of loop 7 (Cys-loop) from the ECD and at most five ␣7 nAChR amino acid residues of the M2-M3 loop (2-3L) from the IPD control the fast activation rates of the ␣7͞Gly chimera and WT GlyR. Mutual interactions of these residues at a critical pivot point between the agonist-binding site and the ion channel fine-tune the intrinsic opening and closing rates of the receptor through stabilization of the transition state of activation. These data provide a structural basis for the fast opening of pentameric LGICs.allosteric proteins ͉ chimeric receptor ͉ Cys-loop receptor ͉ transition state P entameric ligand-gated ion channels (LGICs), such as the cationic nicotinic acetylcholine receptor (nAChR) and the anionic glycine receptor (GlyR), mediate fast excitatory or inhibitory chemical neurotransmission between neurons (1-6). A unique feature of these receptors is that they activate the ion channel, a process known as gating, in less than a ms. For nicotinic receptors, a detailed single-channel analysis has recently established a speed limit for the opening of the ion channel in the s time range (7). Perturbations of this rapid transmission pathway by natural mutants lead to severe diseases such as congenital myasthenic syndromes (8), hereditary hyperekplexia (9), or epileptic disorders (10).Pentameric LGICs, or Cys-loop receptors, are composed of five homologous subunits, sharing a common structural organization, arranged (pseudo)symmetrically around the central ion pore (1, 2). All subunits are made of two distinct topological domains: the extracellular (ECD) and the ion pore domains (IPD). First, the ECD is folded into a twisted ␤-sandwich core, as revealed by x-ray crystallographic studies of the mollusk acetylcholine-binding protein (AChBP), a soluble pentameric protein homologous to the extracellular domain of LGICs (11-14). Second, electron microscopy images of Torpedo nAChR at 4-Å resolution revealed that the four transmembrane segments (M1 to M4) of the IPD are folded into ␣-helices joined by linking loops of variable lengths (15). By combining these structural data, we built a 3D model of the full ␣7 nAChR (16). In this model, the coupling zone located at the interface between the two domains is framed by f...