Cyclic AMP Binding Research Articles

Cyclic AMP binding to a universal stress protein in Mycobacterium tuberculosis is essential for viability

Mycobacterial genomes encode multiple adenylyl cyclases and cAMP effector proteins, underscoring the diverse ways these bacteria utilize cAMP. We identified universal stress proteins, Rv1636 and MSMEG_3811 in Mycobacterium tuberculosis andMycobacterium smegmatis, respectively, as abundantly expressed, novel cAMP-binding proteins. Rv1636 is secreted via the SecA2 secretion system in M.tuberculosis but is not directly responsible for the efflux of cAMP from the cell. In slow-growing mycobacteria, intrabacterial concentrations of Rv1636 were equivalent to the concentrations of cAMP present in the cell. In contrast, levels of intrabacterial MSMEG_3811 in M.smegmatis were lower than that of cAMP and therefore, overexpression of Rv1636 increased levels of "bound" cAMP. While msmeg_3811 could be readily deleted from the genome of M.smegmatis, we found that the rv1636 gene is essential for the viability of M.tuberculosis and is dependent on the cAMP-binding ability of Rv1636. Therefore, Rv1636 may function to regulate cAMP signaling by direct sequestration of the second messenger. This is the first evidence of a "sponge" for any second messenger in bacterial signaling that would allow mycobacterial cells to regulate the available intrabacterial "free" pool of cAMP.

Novel kinetoplastid-specific cAMP binding proteins identified by RNAi screening for cAMP resistance in Trypanosoma brucei.

Cyclic AMP signalling in trypanosomes differs from most eukaryotes due to absence of known cAMP effectors and cAMP independence of PKA. We have previously identified four genes from a genome-wide RNAi screen for resistance to the cAMP phosphodiesterase (PDE) inhibitor NPD-001. The genes were named cAMP Response Protein (CARP) 1 through 4. Here, we report an additional six CARP candidate genes from the original sample, after deep sequencing of the RNA interference target pool retrieved after NPD-001 selection (RIT-seq). The resistance phenotypes were confirmed by individual RNAi knockdown. Highest level of resistance to NPD-001, approximately 17-fold, was seen for knockdown of CARP7 (Tb927.7.4510). CARP1 and CARP11 contain predicted cyclic AMP binding domains and bind cAMP as evidenced by capture and competition on immobilised cAMP. CARP orthologues are strongly enriched in kinetoplastid species, and CARP3 and CARP11 are unique to Trypanosoma. Localization data and/or domain architecture of all CARPs predict association with the T. brucei flagellum. This suggests a crucial role of cAMP in flagellar function, in line with the cell division phenotype caused by high cAMP and the known role of the flagellum for cytokinesis. The CARP collection is a resource for discovery of unusual cAMP pathways and flagellar biology.

Comparison of cyclic AMP binding activity within HCN channel subfamily using atomistic molecular dynamics simulations of isolated cyclic nucleotide binding domains.

Hyperpolarization-activated cyclic nucleotide-gated (HCN) channels are a subfamily of homotetrameric, voltage gated potassium/sodium channels whose activity is modulated by cyclic AMP (cAMP). The binding of cAMP to an intracellular cyclic nucleotide binding domain (CNBD) promotes an increase in channel activity through a depolarizing shift in the voltage threshold necessary for channel activation, as well as kinetically favoring the active channel conformation, leading to improved conductance. While the precise mechanisms of this change are still being investigated, the shift in the CNDB region which is induced by the binding of cAMP is able to be propagated to the remainder of the channel through an adjacent C-linker, causing an alteration in the channel that affects conductance. Although various static structures of the four HCN isoforms with and without bound cyclic nucleotide have been solved and deposited on the Protein Data Bank, there is still a need to understand the precise binding interactions which lead to different sensitivities and selectivities for cyclic nucleotides within the subfamily. Using atomistic molecular dynamics, we have simulated the isolated CNBD of HCN1-4 bound to cAMP and have used both equilibrium simulations and alchemical free energy perturbation to characterize and compare the binding activities of the different isoforms. These simulations highlight the differential cyclic nucleotide binding behavior between HCN channels.

Impact of Redox Modification on PKA Substrate Selection

Protein kinases regulate multiple signaling pathways involved in health and disease. For instance, cyclic adenosine monophosphate‐dependent protein kinase (PKA) controls a diverse set of cellular functions, including gene expression, cell cycle progression, metabolism, and apoptosis. Dysregulation of PKA has been linked to many diseases, including diabetes, cancer, and neurodegenerative disorders. PKA is a tetramer consisting of two regulatory and two catalytic subunits. Cyclic AMP binding to the regulatory subunits leads to dissociation of the catalytic subunits, unleashing them to phosphorylate serine and threonine residues on their target substrates. Previous studies suggest that the alpha isoform of the PKA catalytic subunit (PKA Cα) is oxidized on C199 within the P+1 substrate binding region. We hypothesized that, by modifying the substrate selectivity of PKA Cα, oxidation may regulate which pathway is activated in response to a given signal. Specifically, we investigated the impact of redox modification on the substrate selection of PKA Cα. To this end, we used fluorescence polarization (FP) spectroscopy to assess the ability of oxidized and reduced forms of PKA Cα to bind a variety of model peptide ligands (e.g., PKI, Kemptide, and CREBtide). The binding of each ligand was monitored under equilibrium binding conditions and the apparent equilibrium binding parameters (i.e., KD,app) were determined for each kinase‐ligand pair. These studies suggest that H2O2‐dependent oxidation of PKA Cα alters its interactions with some ligands while having little effect on others. To gain further insights into the factors driving the differential changes in the interaction between PKA Cα and its ligands, we are currently using surface plasmon resonance (SPR) to measure changes in the apparent rate constants, kon,app and koff,app, as well as KD,app. Together, these studies offer important insights into the mechanisms of crosstalk between redox and phosphorylation‐dependent signaling at the level of kinase substrate selection and have implications for kinase regulation during normal and pathological states. Interestingly, the site of oxidation is highly conserved among AGC kinase family members. Therefore, in the future, we will use a multipronged approach to explore the impact of redox modification on the substrate selection of other AGC family members, such as PKA Cβ and AKT1, in neuronal signaling and the etiology of various diseases.

Investigation of Cyclic AMP Binding Interactions with Isolated Cyclic Nucleotide Binding Domain of HCN1 Channel using Atomistic Molecular Dynamics Simulations at Microsecond Timescale

Hyperpolarization-activated cyclic nucleotide-gated channel 1 (HCN1) is a homotetrameric, voltage-gated potassium/sodium channel whose activity is modulated by cyclic AMP. The binding of cAMP to an intracellular cyclic nucleotide binding domain (CNBD) promotes an increase in channel activity through a depolarizing shift in the voltage threshold necessary for channel activation, as well as kinetically favoring the active channel conformation, leading to improved conductance. While the precise mechanisms of this change are still being investigated, the shift in the CNDB region, which is induced by the binding of cAMP, is able to be propagated to the remainder of the channel through an adjacent C-linker, causing an alteration in the channel that leads to increased conductance. Although static structures of both the apo and holo channel states have been solved and compared, there is still a need to understand the precise binding interactions which occur between the cyclic nucleotide and the binding pocket, as well as the dynamic changes to the local protein structure that might lead to the aforementioned changes in activity. Using atomistic molecular dynamics simulations, we have simulated both the apo and holo forms of the isolated CNBD region at a microsecond timescale, and have performed a variety of analyses to relate the two conformations and investigate the interactions of the ligand with the binding pocket. We have also used enhanced sampling techniques to calculate the binding free energy of cAMP. This study provides a computational framework for the study of HCN1-ligand interactions.

Chimeric HCN Channels for Studying Camp-Induced Conformational Changes in the C-Linker

Hyperpolarization-activated cyclic nucleotide-gated (HCN1-4) channels are activated by the hyperpolarization of the membrane potential and further regulated by the direct binding of cyclic AMP (cAMP). The binding of cAMP to the cytoplasmic Cyclic Nucleotide Binding Domain (CNBD) increases channel open probability and speeds activation kinetics. cAMP modulation of HCN channels controls heart rate and working memory networks in prefrontal cortex, but also chronic pain at the level of the peripheral nervous system. Thus, a detailed description of the cAMP conformational changes in HCN channels is crucial for understanding several physiological functions, as well as diseases affecting cardiac and neuronal functions. The cAMP-induced conformational changes propagate from the CNBD to the pore through the C-linker region. We and others have previously described, at the atomic level, the conformational changes at the level of the CNBD. The goal of the present work is to describe the propagation of the movements through the C-linker to the pore. To this end, I have constructed a chimeric channel by fusing the C-linker/CNBD of HCN4 to the prokaryotic pore domain of KcsA (hereafter K-H4). Isothermal Titration Calorimetry (ITC) measurements demonstrated that K-H4 is able to bind to cAMP with a KD value of 2μM, which agrees with the one previously published for the isolated C-linker/CNBD fragment of HCN4 and Differential Scanning Calorimetry (DSC) indicated that cAMP causes conformational changes in the chimeric protein. Recently, Double Electron Electron Resonance (DEER) experiments showed that the binding of cAMP at the level of the CNBD domain of K-H4 causes relevant conformational changes in the C-linker region which transits from a dimer of dimers conformation to a 4-fold symmetrical gating ring as suggested by previous functional and biochemical data.

Theoretical analysis of inducer and operator binding for cyclic-AMP receptor protein mutants

Allosteric transcription factors undergo binding events at inducer binding sites as well as at distinct DNA binding domains, and it is difficult to disentangle the structural and functional consequences of these two classes of interactions. We compare the ability of two statistical mechanical models—the Monod-Wyman-Changeux (MWC) and the Koshland-Némethy-Filmer (KNF) models of protein conformational change—to characterize the multi-step activation mechanism of the broadly acting cyclic-AMP receptor protein (CRP). We first consider the allosteric transition resulting from cyclic-AMP binding to CRP, then analyze how CRP binds to its operator, and finally investigate the ability of CRP to activate gene expression. We use these models to examine a beautiful recent experiment that created a single-chain version of the CRP homodimer, creating six mutants using all possible combinations of the wild type, D53H, and S62F subunits. We demonstrate that the MWC model can explain the behavior of all six mutants using a small, self-consistent set of parameters whose complexity scales with the number of subunits, providing a significant benefit over previous models. In comparison, the KNF model not only leads to a poorer characterization of the available data but also fails to generate parameter values in line with the available structural knowledge of CRP. In addition, we discuss how the conceptual framework developed here for CRP enables us to not merely analyze data retrospectively, but has the predictive power to determine how combinations of mutations will interact, how double mutants will behave, and how each construct would regulate gene expression.

Membrane Cholesterol and the Adenosine A2a Receptor

G-protein coupled receptors (GPCRs) represent the largest family of receptor proteins in the living world, having approximately 800 human genes predicted; however the high-resolution crystal structures of only 26 GPCRs have been reported (Ghosh et al., 2015). The first human GPCR to be crystallized was the β2-adrenergic receptor (β2AR) in 2007 (Cherezov et al., 2007; Rasmussen et al., 2007; Rosenbaum et al., 2007). Shortly thereafter an alternate crystal form of the β2AR revealed a specific cholesterol binding site between helices I, II, III and IV. From this work a cholesterol consensus motif (CCM) was established, which defined specific interactions between cholesterol and the receptor. Utilization of this CCM predicted that as many as 25% of all class A GPCRs could have a specific interaction with cholesterol (Hanson et al., 2008).Our focus is the effects of cholesterol on the activity of the Adenosine A2a receptor (A2aR), a class A GPCR. Membrane cholesterol concentrations were varied in Human embryonic kidney (HEK-293) cells by the use of methyl- β-cyclodextrin (MβCD), which is capable of capturing cholesterol in its inner cavity (Pucadyil et al., 2006). We tested the role that bulk cholesterol depletion played in expression, ligand binding and downstream synthesis of cyclic AMP (cAMP) in HEK-293 cells.Continuing work from our lab will study the specific interaction between cholesterol and A2aR by making point mutations in the residues of the CCM. In A2aR those residues include Tyr43(2.41), Ser47(2.45), Lys122(4.43), Ile125(4.46) and Trp129(4.50) (Lee et al., 2013). Our lab will investigate whether these point mutations effect the interaction between cholesterol and purified receptor, as well as the receptors activity in both yeast and mammalian cell model systems.

A new HECT ubiquitin ligase regulating chemotaxis and development in Dictyostelium discoideum.

Cyclic AMP (cAMP) binding to G-protein-coupled receptors (GPCRs) orchestrates chemotaxis and development in Dictyostelium. By activating the RasC-TORC2-PKB (PKB is also known as AKT in mammals) module, cAMP regulates cell polarization during chemotaxis. TORC2 also mediates GPCR-dependent stimulation of adenylyl cyclase A (ACA), enhancing cAMP relay and developmental gene expression. Thus, mutants defective in the TORC2 Pia subunit (also known as Rictor in mammals) are impaired in chemotaxis and development. Near-saturation mutagenesis of a Pia mutant by random gene disruption led to selection of two suppressor mutants in which spontaneous chemotaxis and development were restored. PKB phosphorylation and chemotactic cell polarization were rescued, whereas Pia-dependent ACA stimulation was not restored but bypassed, leading to cAMP-dependent developmental gene expression. Knocking out the gene encoding the adenylylcyclase B (ACB) in the parental strain showed ACB to be essential for this process. The gene tagged in the suppressor mutants encodes a newly unidentified HECT ubiquitin ligase that is homologous to mammalian HERC1, but harbours a pleckstrin homology domain. Expression of the isolated wild-type HECT domain, but not a mutant HECT C5185S form, from this protein was sufficient to reconstitute the parental phenotype. The new ubiquitin ligase appears to regulate cell sensitivity to cAMP signalling and TORC2-dependent PKB phosphorylation.

HCN Channel Blockers Act Pre‐ and Post‐Synaptically to Inhibit Synaptic Transmission and Gain in the Rat Superior Cervical Sympathetic Ganglion

Hyperpolarization‐activated cation channels encoded by HCN subunits are permeable to Na+ and K+ ions and carry inward h‐currents. The h‐current (Ih) was originally discovered in the heart, where it is the principal pacemaker current. Ivabradine, a selective blocker of Ih, was approved in the US in 2015 as an adjunct to β‐adrenergic blockade for clinical management of heart failure. Recently we observed that sympathetic neurons in the rat superior cervical ganglion (SCG) express prominent Ih responses that can be blocked by ZD7288, another selective antagonist. The goal of the present study was to test the hypothesis that Ih modulates synaptic transmission in sympathetic ganglia. We did this using dissociated SCG neurons and using acutely isolated intact ganglia, treated with enzymes to permit whole‐cell recording, together with simultaneous presynaptic stimulation and extracellular recording. When synaptic transmission was elicited by submaximal 1 Hz stimulation in the isolated intact SCG, the extracellular postsynaptic compound action potential was inhibited by about 20% by 10–40 μM Ivabradine and by 10–20 μM ZD7288. In dissociated SCG neurons, we measured Ih under voltage clamp, fit the data to a Hodgkin‐Huxley model and then used the model to implement virtual Ih under dynamic clamp. When neurons were probed with virtual nicotinic fast EPSPs created with dynamic clamp, blocking Ih with 10–15 μM ZD7288 increased the threshold‐synaptic conductance (thresh‐gsyn) from 7.0 ± 0.9 nS to 12.1 ± 2.0 nS (p<0.0001) and decreased synaptic gain from 2.2 to 1.7 in response to noisy patterns of virtual synaptic activity that were designed to mimic physiological activity in vivo. This indicates that the native postsynaptic Ih normally enhances synaptic amplification to increase postsynaptic spike output by the SCG. When the native Ih was reconstituted with virtual Ih, synaptic amplification was restored. Shifting the voltage‐dependence of activation to mimic binding of cyclic AMP to HCN channels further modulated thresh‐gsyn and synaptic gain. To assess presynaptic actions of Ih, we then measured nicotinic cholinergic synaptic currents evoked by minimal presynaptic stimulation of the intact SCG. Ivabradine and ZD7288 both reduced peak EPSC amplitude and total charge by 40 to 50% while also increasing the failure rate. This indicates that native Ih normally enhances the probability of acetylcholine release and the amount of release by preganglionic terminals. Taken together the results suggest that clinical use of Ivabradine may have the heretofore unknown effect of reducing peripheral sympathetic activity through its pre‐ and postsynaptic effects on ganglionic transmission. This may have beneficial therapeutic consequences by countering the sympathetic hyperactivity that can drive human hypertension and that exacerbates the progression of heart failure.Support or Funding InformationSupported by the Great Rivers Affiliate of the American Heart Association through Grant‐in‐Aid 13GRNT1685007

Structural Mechanism for the Regulation of HCN Ion Channels by the Accessory Protein TRIP8b

Hyperpolarization-activated cyclic nucleotide-gated (HCN) ion channels underlie the cationic Ih current present in many neurons. The direct binding of cyclic AMP to HCN channels increases the rate and extent of channel opening and results in a depolarizing shift in the voltage dependence of activation. TRIP8b is an accessory protein that regulates the cell surface expression and dendritic localization of HCN channels and reduces the cyclic nucleotide dependence of these channels. Here, we use electron paramagnetic resonance (EPR) to show that TRIP8b binds to the apo state of the cyclic nucleotide binding domain (CNBD) of HCN2 channels without changing the overall domain structure. With EPR and nuclear magnetic resonance, we locate TRIP8b relative to the HCN channel and identify the binding interface on the CNBD. These data provide a structural framework for understanding how TRIP8b regulates the cyclic nucleotide dependence of HCN channels.

The Crystal Structures of Apo and cAMP-Bound GlxR from Corynebacterium glutamicum Reveal Structural and Dynamic Changes upon cAMP Binding in CRP/FNR Family Transcription Factors

The cyclic AMP-dependent transcriptional regulator GlxR from Corynebacterium glutamicum is a member of the super-family of CRP/FNR (cyclic AMP receptor protein/fumarate and nitrate reduction regulator) transcriptional regulators that play central roles in bacterial metabolic regulatory networks. In C. glutamicum, which is widely used for the industrial production of amino acids and serves as a non-pathogenic model organism for members of the Corynebacteriales including Mycobacterium tuberculosis, the GlxR homodimer controls the transcription of a large number of genes involved in carbon metabolism. GlxR therefore represents a key target for understanding the regulation and coordination of C. glutamicum metabolism. Here we investigate cylic AMP and DNA binding of GlxR from C. glutamicum and describe the crystal structures of apo GlxR determined at a resolution of 2.5 Å, and two crystal forms of holo GlxR at resolutions of 2.38 and 1.82 Å, respectively. The detailed structural analysis and comparison of GlxR with CRP reveals that the protein undergoes a distinctive conformational change upon cyclic AMP binding leading to a dimer structure more compatible to DNA-binding. As the two binding sites in the GlxR homodimer are structurally identical dynamic changes upon binding of the first ligand are responsible for the allosteric behavior. The results presented here show how dynamic and structural changes in GlxR lead to optimization of orientation and distance of its two DNA-binding helices for optimal DNA recognition.

The Auto-Inhibitory Role of the EPAC Hinge Helix as Mapped by NMR

The cyclic-AMP binding domain (CBD) is the central regulatory unit of exchange proteins activated by cAMP (EPAC). The CBD maintains EPAC in a state of auto-inhibition in the absence of the allosteric effector, cAMP. When cAMP binds to the CBD such auto-inhibition is released, leading to EPAC activation. It has been shown that a key feature of such cAMP-dependent activation process is the partial destabilization of a structurally conserved hinge helix at the C-terminus of the CBD. However, the role of this helix in auto-inhibition is currently not fully understood. Here we utilize a series of progressive deletion mutants that mimic the hinge helix destabilization caused by cAMP to show that such helix is also a pivotal auto-inhibitory element of apo-EPAC. The effect of the deletion mutations on the auto-inhibitory apo/inactive vs. apo/active equilibrium was evaluated using recently developed NMR chemical shift projection and covariance analysis methods. Our results show that, even in the absence of cAMP, the C-terminal region of the hinge helix is tightly coupled to other conserved allosteric structural elements of the CBD and perturbations that destabilize the hinge helix shift the auto-inhibitory equilibrium toward the apo/active conformations. These findings explain the apparently counterintuitive observation that cAMP binds more tightly to shorter than longer EPAC constructs. These results are relevant for CBDs in general and rationalize why substrates sensitize CBD-containing systems to cAMP. Furthermore, the NMR analyses presented here are expected to be generally useful to quantitatively evaluate how mutations affect conformational equilibria.

Energetics of Cyclic AMP Binding to HCN Channel C Terminus Reveal Negative Cooperativity

Cyclic AMP binds to the HCN channel C terminus and variably stabilizes its open state. Using isothermal titration calorimetry, we show that cAMP binds to one subunit of tetrameric HCN2 and HCN4 C termini with high affinity (∼0.12 μM) and subsequently with low affinity (∼1 μM) to the remaining three subunits. Changes induced by high affinity binding already exist in both a constrained HCN2 tetramer and the unconstrained HCN1 tetramer. Natural "preactivation" of HCN1 may explain both the smaller effect of cAMP on stabilizing its open state and the opening of unliganded HCN1, which occurs as though already disinhibited.

CAMP signal relay and streaming during Dictyostelium development

Upon starvation, Dictyostelium discoideum cells enter a developmental program leading to a transition between cells operating as individuals to group behavior. The process is mediated by extracellular cyclic AMP (cAMP) binding to the cAMP receptor 1 (cAR1), which initiates a signaling cascade leading to the activation of Adenylyl Cyclase A (ACA). A burst of cAMP is synthesized when ACA is first activated. While part of the cAMP synthesized remains inside cells to activate PKA, the majority of it is secreted to act in an autocrine and paracrine fashion. For a spatially extended cell population, release of cAMP allows neighboring cells to polarize and migrate directionally, a process known as chemotaxis, and form characteristic chains of cells called streams. We now report that cAMP relay can be readily measured biochemically by assessing ACA activity at various time points after stimulating cells with subsaturating concentrations of cAMP. We also find that the relay of cAMP signals can be measured by monitoring ERK2 or PKBR1 activation/deactivation. Using cells with high intracellular cAMP, we further establish that the capability of cells to relay signals changes during development – a phenomenon that occurs coincidently with the streaming ability of cells during chemotaxis. We propose that as cells proceed through development, cAMP sequesters cAR1, which dramatically impacts downstream signaling cascades.

Cyclic AMP Receptor Protein−Aequorin Molecular Switch for Cyclic AMP

Molecular switches are designer molecules that combine the functionality of two individual proteins into one, capable of manifesting an "on/off" signal in response to a stimulus. These switches have unique properties and functionalities and thus, can be employed as nanosensors in a variety of applications. To that end, we have developed a bioluminescent molecular switch for cyclic AMP. Bioluminescence offers many advantages over fluorescence and other detection methods including the fact that there is essentially zero background signal in physiological fluids, allowing for more sensitive detection and monitoring. The switch was created by combining the properties of the cyclic AMP receptor protein (CRP), a transcriptional regulatory protein from E. Coli that binds selectively to cAMP with those of aequorin, a bioluminescent photoprotein native of the jellyfish Aequorea victoria . Genetic manipulation to split the genetic coding sequence of aequorin in two and genetically attach the fragments to the N and C termini of CRP resulted in a hybrid protein molecular switch. The conformational change experienced by CRP upon the binding of cyclic AMP is suspected to result in the observed loss of the bioluminescent signal from aequorin. The "on/off" bioluminescence can be modulated by cyclic AMP over a range of several orders of magnitude in a linear fashion in addition to the capacity to detect changes in cellular cyclic AMP of intact cells exposed to different external stimuli without the need to lyse the cells. We envision that the molecular switch could find applications in vitro as well as In Vivo cyclic AMP detection and/or imaging.

The Cyclic Nucleotide Monophosphate Domain ofXanthomonas campestrisGlobal Regulator Clp Defines a New Class of Cyclic Di-GMP Effectors

The widely conserved second messenger cyclic diguanosine monophosphate (c-di-GMP) plays a key role in quorum-sensing (QS)-dependent production of virulence factors in Xanthomonas campestris pv. campestris. The detection of QS diffusible signal factor (DSF) by the sensor RpfC leads to the activation of response regulator RpfG, which activates virulence gene expression by degrading c-di-GMP. Here, we show that a global regulator in the X. campestris pv. campestris QS regulatory pathway, Clp, is a c-di-GMP effector. c-di-GMP specifically binds to Clp with high affinity and induces allosteric conformational changes that abolish the interaction between Clp and its target gene promoter. Clp is similar to the cyclic AMP (cAMP) binding proteins Crp and Vfr and contains a conserved cyclic nucleotide monophosphate (cNMP) binding domain. Using site-directed mutagenesis, we found that the cNMP binding domain of Clp contains a glutamic acid residue (E99) that is essential for c-di-GMP binding. Substituting the residue with serine (E99S) resulted in decreased sensitivity to changes in the intracellular c-di-GMP level and attenuated bacterial virulence. These data establish the direct role of Clp in the response to fluctuating c-di-GMP levels and depict a novel mechanism by which QS links the second messenger with the X. campestris pv. campestris virulence regulon.

Dynamic activation of an allosteric regulatory protein

Allosteric regulation is used as a very efficient mechanism to control protein activity in most biological processes, including signal transduction, metabolism, catalysis and gene regulation. Allosteric proteins can exist in several conformational states with distinct binding or enzymatic activity. Effectors are considered to function in a purely structural manner by selectively stabilizing a specific conformational state, thereby regulating protein activity. Here we show that allosteric proteins can be regulated predominantly by changes in their structural dynamics. We have used NMR spectroscopy and isothermal titration calorimetry to characterize cyclic AMP (cAMP) binding to the catabolite activator protein (CAP), a transcriptional activator that has been a prototype for understanding effector-mediated allosteric control of protein activity. cAMP switches CAP from the 'off' state (inactive), which binds DNA weakly and non-specifically, to the 'on' state (active), which binds DNA strongly and specifically. In contrast, cAMP binding to a single CAP mutant, CAP-S62F, fails to elicit the active conformation; yet, cAMP binding to CAP-S62F strongly activates the protein for DNA binding. NMR and thermodynamic analyses show that despite the fact that CAP-S62F-cAMP(2) adopts the inactive conformation, its strong binding to DNA is driven by a large conformational entropy originating in enhanced protein motions induced by DNA binding. The results provide strong evidence that changes in protein motions may activate allosteric proteins that are otherwise structurally inactive.

A novel cyclic nucleotide-gated ion channel enriched in synaptic terminals of isotocin neurons in zebrafish brain and pituitary

Cyclic nucleotide-gated (CNG) channels are nonselective cation channels opened by binding of intracellular cyclic GMP or cyclic AMP. CNG channels mediate sensory transduction in the rods and cones of the retina and in olfactory sensory neurons, but in addition, CNG channels are also expressed elsewhere in the CNS, where their physiological roles have not yet been well defined. Besides the CNG channel subtypes that mediate vision and olfaction, zebrafish has an additional subtype, CNGA5, which is expressed almost exclusively in the brain. We have generated CNGA5-specific monoclonal antibodies, which we use here to show that immunoreactivity for CNGA5 channels is highly enriched in synaptic terminals of a discrete set of neurons that project to a subregion of the pituitary, as well as diffusely in the brain and spinal cord. Double labeling with a variety of antibodies against pituitary hormones revealed that CNGA5 is located in the terminals of neuroendocrine cells that secrete the nonapeptide hormone/transmitter isotocin in the neurohypophysis, brain, and spinal cord. Furthermore, we show that CNGA5 channels expressed in Xenopus oocytes are highly permeable to Ca2+, which suggests that the channels are capable of modulating isotocin release in the zebrafish brain and pituitary. Isotocin is the teleost homolog of the mammalian hormone oxytocin, and like oxytocin, it regulates reproductive and social behavior. Therefore, the high calcium permeability of CNGA5 channels and their strategic location in isotocin-secreting synaptic terminals suggest that activation of CNGA5 channels in response to cyclic nucleotide signaling may have wide-ranging neuroendocrine and behavioral effects.

Evolution of PKA Signaling: Structure of Yeast Regulatory Subunit

cAMP is known to mediate, in both prokaryotes and eukaryotes, a wide variety of cellular responses to external stimuli. In eukaryotes, the major receptor for cAMP signaling is the regulatory subunit (R) of cAMP‐dependent protein kinase (PKA). In mammals there are two major classes of R subunits (I and II), however, Saccharomyces cerevisiae has only one R gene (Bcy1). As the yeast is far from mammals in the phylogenetic tree the study of this protein is important from the point of view of molecular evolution. Sequence analysis of the cyclic‐AMP binding domain (CNB) has shown that the fungal R subunits belong to a distinct group, yet exhibits some similarity to both mammalian RI and RII. In order to a molecular understanding of the mechanism of activation of PKA by cAMP in yeast and to provide insight into the evolution of cAMP receptor, we purified and crystalized a deletion mutant of Bcy1, Bcy1(168‐416) bound to cAMP and then compared it with the previous structures of mammalian RIα and RII ? cAMP‐bound isoforms. Surprisingly the relative orientation of the two CNB domains in Bcy1 is very different from RIα and RIIβ, although each domain superimposes very well. This structure serves as a hallmark for the yeast PKA. Closer examination of the structural differences between mammalian R subunits and Bcy1 identifies a hinge point in the kink between the B and C helices of the A domain that accounts for the major deviation in tertiary structure of the different R subunits. The similarity and differences of the interface between the two CNB domains in Bcy1 was also described and compared with the mammalian isoforms. (Supported in part by NIH GM34921 to SST)