Resolving the fast kinetics of cooperative binding: Ca2+ buffering by calretinin

Restricted diffusion of calretinin in cerebellar granule cell dendrites implies Ca²⁺-dependent interactions via its EF-hand 5 domain

Ca²⁺-binding proteins (CaBPs) are important regulators of neuronal Ca²⁺ signalling, acting either as buffers that shape Ca²⁺ transients and Ca²⁺ diffusion and/or as Ca²⁺ sensors. The diffusional mobility represents a crucial functional parameter of CaBPs, describing their range-of-action and possible interactions with binding partners. Calretinin (CR) is a CaBP widely expressed in the nervous system with strong expression in cerebellar granule cells. It is involved in regulating excitability and synaptic transmission of granule cells, and its absence leads to impaired motor control. We quantified the diffusional mobility of dye-labelled CR in mouse granule cells using two-photon fluorescence recovery after photobleaching. We found that movement of macromolecules in granule cell dendrites was not well described by free Brownian diffusion and that CR diffused unexpectedly slow compared to fluorescein dextrans of comparable size. During bursts of action potentials, which were associated with dendritic Ca²⁺ transients, the mobility of CR was further reduced. Diffusion was significantly accelerated by a peptide embracing EF-hand 5 of CR. Our results suggest long-lasting, Ca²⁺-dependent interactions of CR with large and/or immobile binding partners. These interactions render CR a poorly mobile Ca²⁺ buffer and point towards a Ca²⁺ sensor function of CR.

Statistical mechanics of Monod-Wyman-Changeux (MWC) models

The 50th anniversary of the classic Monod-Wyman-Changeux (MWC) model provides an opportunity to survey the broader conceptual and quantitative implications of this quintessential biophysical model. With the use of statistical mechanics, the mathematical implementation of the MWC concept links problems that seem otherwise to have no ostensible biological connection including ligand-receptor binding, ligand-gated ion channels, chemotaxis, chromatin structure and gene regulation. Hence, a thorough mathematical analysis of the MWC model can illuminate the performance limits of a number of unrelated biological systems in one stroke. The goal of our review is twofold. First, we describe in detail the general physical principles that are used to derive the activity of MWC molecules as a function of their regulatory ligands. Second, we illustrate the power of ideas from information theory and dynamical systems for quantifying how well the output of MWC molecules tracks their sensory input, giving a sense of the "design" constraints faced by these receptors.

Models of calcium dynamics in cerebellar granule cells

Intracellular calcium dynamics is critical for many functions of cerebellar granule cells (GrCs) including membrane excitability, synaptic plasticity, apoptosis, and regulation of gene transcription. Recent measurements of calcium responses in GrCs to depolarization and synaptic stimulation reveal spatial compartmentalization and heterogeneity within dendrites of these cells. However, the main determinants of local calcium dynamics in GrCs are still poorly understood. One reason is that there have been few published studies of calcium dynamics in intact GrCs in their native environment. In the absence of complete information, biophysically realistic models are useful for testing whether specific Ca(2+) handling mechanisms may account for existing experimental observations. Simulation results can be used to identify critical measurements that would discriminate between different models. In this review, we briefly describe experimental studies and phenomenological models of Ca(2+) signaling in GrC, and then discuss a particular biophysical model, with a special emphasis on an approach for obtaining information regarding the distribution of Ca(2+) handling systems under conditions of incomplete experimental data. Use of this approach suggests that Ca(2+) channels and fixed endogenous Ca(2+) buffers are highly heterogeneously distributed in GrCs. Research avenues for investigating calcium dynamics in GrCs by a combination of experimental and modeling studies are proposed.

Effects of calretinin on Ca2+ signals in cerebellar granule cells: implications of cooperative Ca2+ binding

Calretinin is thought to be the main endogenous calcium buffer in cerebellar granule cells (GrCs). However, little is known about the impact of cooperative Ca(2+) binding to calretinin on highly localized and more global (regional) Ca(2+) signals in these cells. Using numerical simulations, we show that an essential property of calretinin is a delayed equilibration with Ca(2+). Therefore, the amount of Ca(2+), which calretinin can accumulate with respect to equilibrium levels, depends on stimulus conditions. Based on our simulations of buffered Ca(2+) diffusion near a single Ca(2+) channel or a large cluster of Ca(2+) channels and previous experimental findings that 150 μM 1,2-bis(o-aminophenoxy) ethane-N, N, N', N'-tetraacetic acid (BAPTA) and endogenous calretinin have similar effects on GrC excitability, we estimated the concentration of mobile calretinin in GrCs in the range of 0.7-1.2 mM. Our results suggest that this estimate can provide a starting point for further analysis. We find that calretinin prominently reduces the action potential associated increase in cytosolic free Ca(2+) concentration ([Ca(2+)]( i )) even at a distance of 30 nm from a single Ca(2+) channel. In spite of a buildup of residual Ca(2+), it maintains almost constant maximal [Ca(2+)]( i ) levels during repetitive channel openings with a frequency less than 80 Hz. This occurs because of accelerated Ca(2+) binding as calretinin binds more Ca(2+). Unlike the buffering of high Ca(2+) levels within Ca(2+) nano/microdomains sensed by large conductance Ca(2+)-activated K(+) channels, the buffering of regional Ca(2+) signals by calretinin can never be mimicked by certain concentration of BAPTA under all different experimental conditions.

Ca(2+) sensor proteins in dendritic spines: a race for Ca(2+)

Dendritic spines are believed to be micro-compartments of Ca²⁺ regulation. In a recent study, it was suggested that the ubiquitous and evolutionarily conserved Ca²⁺ sensor, calmodulin (CaM), is the first to intercept Ca²⁺ entering the spine and might be responsible for the fast decay of Ca²⁺ transients in spines. Neuronal calcium sensor (NCS) and neuronal calcium-binding protein (nCaBP) families consist of Ca²⁺ sensors with largely unknown synaptic functions despite an increasing number of interaction partners. Particularly how these sensors operate in spines in the presence of CaM has not been discussed in detail before. The limited Ca²⁺ resources and the existence of common targets create a highly competitive environment where Ca²⁺ sensors compete with each other for Ca²⁺ and target binding. In this review, we take a simple numerical approach to put forth possible scenarios and their impact on signaling via Ca²⁺ sensors of the NCS and nCaBP families. We also discuss the ways in which spine geometry and properties of ion channels, their kinetics and distribution, alter the spatio-temporal aspects of Ca²⁺ transients in dendritic spines, whose interplay with Ca²⁺ sensors in turn influences the race for Ca²⁺.

The absence of the calcium-buffering protein calbindin is associated with faster age-related decline in hippocampal metabolism

Although reductions in the expression of the calcium-buffering proteins calbindin D-28K (CB) and parvalbumin (PV) have been observed in the aging brain, it is unknown whether these changes contribute to age-related hippocampal dysfunction. To address this issue, we measured basal hippocampal metabolism and hippocampal structure across the lifespan of C57BL/6J, calbindin D-28k knockout (CBKO) and parvalbumin knockout (PVKO) mice. Basal metabolism was estimated using steady state relative cerebral blood volume (rCBV), which is a variant of fMRI that provides the highest spatial resolution, optimal for the analysis of individual subregions of the hippocampal formation. We found that like primates, normal aging in C57BL/6J mice is characterized by an age-dependent decline in rCBV-estimated dentate gyrus (DG) metabolism. Although abnormal hippocampal fMRI signals were observed in CBKO and PVKO mice, only CBKO mice showed accelerated age-dependent decline of rCBV-estimated metabolism in the DG. We also found age-independent structural changes in CBKO mice, which included an enlarged hippocampus and neocortex as well as global brain hypertrophy. These metabolic and structural changes in CBKO mice correlated with a deficit in hippocampus-dependent learning in the active place avoidance task. Our results suggest that the decrease in CB that occurs during normal aging is involved in age-related hippocampal metabolic decline. Our findings also illustrate the value of using multiple MRI techniques in transgenic mice to investigate mechanisms involved in the functional and structural changes that occur during aging.

Three functional facets of calbindin D-28k

Many neurons of the vertebrate central nervous system (CNS) express the Ca²⁺ binding protein calbindin D-28k (CB), including important projection neurons like cerebellar Purkinje cells but also neocortical interneurons. CB has moderate cytoplasmic mobility and comprises at least four EF-hands that function in Ca²⁺ binding with rapid to intermediate kinetics and affinity. Classically it was viewed as a pure Ca²⁺ buffer important for neuronal survival. This view was extended by showing that CB is a critical determinant in the control of synaptic Ca²⁺ dynamics, presumably with strong impact on plasticity and information processing. Already 30 years ago, in vitro studies suggested that CB could have an additional Ca²⁺ sensor function, like its prominent acquaintance calmodulin (CaM). More recent work substantiated this hypothesis, revealing direct CB interactions with several target proteins. Different from a classical sensor, however, CB appears to interact with its targets both, in its Ca²⁺-loaded and Ca²⁺-free forms. Finally, CB has been shown to be involved in buffered transport of Ca²⁺, in neurons but also in kidney. Thus, CB serves a threefold function as buffer, transporter and likely as a non-canonical sensor.

The renaissance of Ca2+-binding proteins in the nervous system: secretagogin takes center stage

Effective control of the Ca(2+) homeostasis in any living cell is paramount to coordinate some of the most essential physiological processes, including cell division, morphological differentiation, and intercellular communication. Therefore, effective homeostatic mechanisms have evolved to maintain the intracellular Ca(2+) concentration at physiologically adequate levels, as well as to regulate the spatial and temporal dynamics of Ca(2+)signaling at subcellular resolution. Members of the superfamily of EF-hand Ca(2+)-binding proteins are effective to either attenuate intracellular Ca(2+) transients as stochiometric buffers or function as Ca(2+) sensors whose conformational change upon Ca(2+) binding triggers protein-protein interactions, leading to cell state-specific intracellular signaling events. In the central nervous system, some EF-hand Ca(2+)-binding proteins are restricted to specific subtypes of neurons or glia, with their expression under developmental and/or metabolic control. Therefore, Ca(2+)-binding proteins are widely used as molecular markers of cell identity whilst also predicting excitability and neurotransmitter release profiles in response to electrical stimuli. Secretagogin is a novel member of the group of EF-hand Ca(2+)-binding proteins whose expression precedes that of many other Ca(2+)-binding proteins in postmitotic, migratory neurons in the embryonic nervous system. Secretagogin expression persists during neurogenesis in the adult brain, yet becomes confined to regionalized subsets of differentiated neurons in the adult central and peripheral nervous and neuroendocrine systems. Secretagogin may be implicated in the control of neuronal turnover and differentiation, particularly since it is re-expressed in neoplastic brain and endocrine tumors and modulates cell proliferation in vitro. Alternatively, and since secretagogin can bind to SNARE proteins, it might function as a Ca(2+) sensor/coincidence detector modulating vesicular exocytosis of neurotransmitters, neuropeptides or hormones. Thus, secretagogin emerges as a functionally multifaceted Ca(2+)-binding protein whose molecular characterization can unravel a new and fundamental dimension of Ca(2+)signaling under physiological and disease conditions in the nervous system and beyond.

Combined computational and experimental approaches to understanding the Ca(2+) regulatory network in neurons

Ca(2+) is a ubiquitous signaling ion that regulates a variety of neuronal functions by binding to and altering the state of effector proteins. Spatial relationships and temporal dynamics of Ca(2+) elevations determine many cellular responses of neurons to chemical and electrical stimulation. There is a wealth of information regarding the properties and distribution of Ca(2+) channels, pumps, exchangers, and buffers that participate in Ca(2+) regulation. At the same time, new imaging techniques permit characterization of evoked Ca(2+) signals with increasing spatial and temporal resolution. However, understanding the mechanistic link between functional properties of Ca(2+) handling proteins and the stimulus-evoked Ca(2+) signals they orchestrate requires consideration of the way Ca(2+) handling mechanisms operate together as a system in native cells. A wide array of biophysical modeling approaches is available for studying this problem and can be used in a variety of ways. Models can be useful to explain the behavior of complex systems, to evaluate the role of individual Ca(2+) handling mechanisms, to extract valuable parameters, and to generate predictions that can be validated experimentally. In this review, we discuss recent advances in understanding the underlying mechanisms of Ca(2+) signaling in neurons via mathematical modeling. We emphasize the value of developing realistic models based on experimentally validated descriptions of Ca(2+) transport and buffering that can be tested and refined through new experiments to develop increasingly accurate biophysical descriptions of Ca(2+) signaling in neurons.

Immunocytochemical localization of calretinin-containing neurons in the rat periaqueductal gray and colocalization with enzymes producing nitric oxide: a double, double-labeling study

The pattern of distribution and colocalization of the calcium-binding protein calretinin (Cal) and of enzymes producing nitric oxide (NO) was examined in the rat periaqueductal gray matter (PAG) using two different experimental approaches, by combining Cal immunocytochemistry with NADPH-diaphorase (NADPH-d) histochemistry and with NOS immunocytochemistry, respectively. Cal-immunopositive neurons were found throughout the rostrocaudal extension of both dorsolateral (PAG-dl) and ventrolateral PAG (PAG-vl). Double-labeled neurons were found only in PAG-dl. The first experimental approach indicated that 33-41% of the NADPH-d-positive (Nadph+) cells were immunoreactive for Cal, whereas NADPH-d activity appeared in 19-26% of the Cal-immunopositive (Cal(IP) ) neurons. Two-color immunofluorescence revealed that ∼39-43% of NOS-immunoreactive (NOS(IR) ) neurons were double-labeled with Cal and ∼23% of Cal(IP) neurons expressed NOS immunoreactivity. Measurement in semithin sections of the size of the three neuronal populations found in PAG-dl, showed that Cal(IP) neurons had a cross-sectional area of 94.7 μm², whereas Nadph+ neurons and double-labeled neurons were slightly smaller, having a cross-sectional area of 90.5 and 91.4 μm², respectively. On electron microscopy, Cal(IP) axon terminals formed either symmetric or asymmetric synapses; although the latter synapses were more numerous, both types contacted preferentially Cal(IP) dendrites. These experiments suggest that PAG-dl is characterized by a high degree of heterogeneity.

Nanodomain coupling between Ca²⁺ channels and sensors of exocytosis at fast mammalian synapses

The physical distance between presynaptic Ca(2+) channels and the Ca(2+) sensors that trigger exocytosis of neurotransmitter-containing vesicles is a key determinant of the signalling properties of synapses in the nervous system. Recent functional analysis indicates that in some fast central synapses, transmitter release is triggered by a small number of Ca(2+) channels that are coupled to Ca(2+) sensors at the nanometre scale. Molecular analysis suggests that this tight coupling is generated by protein-protein interactions involving Ca(2+) channels, Ca(2+) sensors and various other synaptic proteins. Nanodomain coupling has several functional advantages, as it increases the efficacy, speed and energy efficiency of synaptic transmission.

Measuring the kinetics of calcium binding proteins with flash photolysis

BACKGROUND

Calcium-binding proteins (CBPs) are instrumental in the control of Ca2+ signaling. They are the fastest players within the Ca2+ toolkit responding within microseconds to [Ca2+] changes. The CBPs compete for Ca2+ which plays a direct role in modulating Ca2+ transients and the resulting biochemical message. The kinetic properties of the CBPs have to be known to have a good understanding of Ca2+ signaling.

SCOPE OF REVIEW

Most techniques used to measure binding kinetics are too slow to accurately determine the fast kinetics of most CBP. Furthermore, many CBPs bind Ca2+ in a cooperative way, which should be incorporated in the kinetic modeling. Here we will review a new ultra-fast in vitro technique for measuring Ca2+ binding properties of CBPs following flash photolysis of caged Ca2+. Compartmental modeling is used to resolve the kinetics of fast cooperative Ca2+ binding to CBPs.

MAJOR CONCLUSIONS

Currently this technique has only been used to quantify the kinetics of three CBPs (calbindin, calretinin and calmodulin), but has already provided remarkable insights into the specific role that these kinetics in Ca2+ signaling.

GENERAL SIGNIFICANCE

The potential to gain novel insights into Ca2+ signaling by quantifying kinetics of other CBPs using this technique is very promising. This article is part of a Special Issue entitled Biochemical, biophysical and genetic approaches to intracellular calcium signaling.

Calmodulin as a direct detector of Ca2+ signals

Many forms of signal transduction occur when Ca²⁺ enters the cytoplasm of a cell. It has been generally thought that there is a fast buffer that rapidly reduces the free Ca²⁺ level and that it is this buffered level of Ca²⁺ that triggers downstream biochemical processes, notably the activation of calmodulin (CaM) and the resulting activation of CaM-dependent enzymes. Given the importance of these transduction processes, it is critical to understand exactly how Ca²⁺ triggers CaM. We have determined the rate at which Ca²⁺ binds to calmodulin (CaM) and found that Ca²⁺ binds more rapidly than to other Ca²⁺-binding proteins. This property of CaM and its high concentration argue for a new view of signal transduction: CaM directly intercepts incoming Ca²⁺ and sets the free Ca²⁺ levels (i.e., strongly contributes to fast Ca²⁺ buffering) rather than responding to the lower Ca²⁺ level set by other buffers. This property is critical for making CaM an efficient transducer. Our results also suggest a new role for other Ca²⁺ binding proteins (CBPs) in regulating the lifetime of Ca²⁺ bound to CaM, thereby setting the gain of signal transduction.

Cytosolic Ca2+ buffers

"Ca(2+) buffers," a class of cytosolic Ca(2+)-binding proteins, act as modulators of short-lived intracellular Ca(2+) signals; they affect both the temporal and spatial aspects of these transient increases in [Ca(2+)](i). Examples of Ca(2+) buffers include parvalbumins (α and β isoforms), calbindin-D9k, calbindin-D28k, and calretinin. Besides their proven Ca(2+) buffer function, some might additionally have Ca(2+) sensor functions. Ca(2+) buffers have to be viewed as one of the components implicated in the precise regulation of Ca(2+) signaling and Ca(2+) homeostasis. Each cell is equipped with proteins, including Ca(2+) channels, transporters, and pumps that, together with the Ca(2+) buffers, shape the intracellular Ca(2+) signals. All of these molecules are not only functionally coupled, but their expression is likely to be regulated in a Ca(2+)-dependent manner to maintain normal Ca(2+) signaling, even in the absence or malfunctioning of one of the components.

A bipartite butyrate-responsive element in the human calretinin (CALB2) promoter acts as a repressor in colon carcinoma cells but not in mesothelioma cells

The short-chain fatty acid butyrate plays an essential role in colonic mucosa homeostasis through the capacity to block the cell cycle, regulate differentiation and to induce apoptosis. The beneficial effect of dietary fibers on preventing colon cancer is essentially mediated through butyrate, derived from luminal fermentation of fibers by intestinal bacteria. In epithelial cells of the colon, both in normal and colon cancer cells, the expression of several genes is positively or negatively regulated by butyrate likely through modulation of histone acetylation and thereby affecting the transcriptional activity of genes. Calretinin (CALB2) is a member of the EF-hand family of Ca(2+)-binding proteins and is expressed in a majority of poorly differentiated colon carcinoma and additionally in mesothelioma of the epithelioid and mixed type. Since CALB2 is one of the genes negatively regulated by butyrate in colon cancer cells and butyrate decreases calretinin protein expression levels in those cells, we investigated whether expression is regulated via putative butyrate-responsive elements (BRE) in the human CALB2 promoter. We identified two elements that act as butyrate-sensitive repressors in all colon cancer cell lines tested (CaCo-2, HT-29, Co-115/3). In contrast, in cells of mesothelial origin, MeT-5A and ZL34, the same two elements do not operate as butyrate-sensitive repressors and calretinin expression levels are insensitive to butyrate indicative of cell type-specific regulation of the CALB2 promoter. Calretinin expression in colon cancer cells is negatively regulated by butyrate via a bipartite BRE flanking the TATA box and this may be linked to butyrate's chemopreventive activity.

Computational study of non-homogeneous distribution of Ca(2+) handling systems in cerebellar granule cells

The spatiotemporal distribution of cytosolic free calcium concentration ([Ca(2+)](i)) in cerebellar granule cells (GrCs) is thought to be critical in defining the occurrence and direction of long-term changes in synaptic strength at cerebellar mossy fiber-GrC synapses. Despite this, the mechanisms responsible for shaping Ca(2+) transients in GrCs are not well understood. To investigate the interplay between Ca(2+) entry, extrusion, buffering and dendritic morphology in shaping Ca(2+) elevations in GrCs, we developed a model of Ca(2+) regulation in these cells and examined the requirements for reproducing fluorescence responses to depolarization and synaptic stimulation previously described in the literature. Two conclusions can be drawn from our simulation results. First, a significant progressive decrease in the amplitudes of depolarization-evoked fluorescence transients from the dendritic endings (digits) toward the soma of GrCs, can be reproduced in the model only if the density of Ca(2+) channels is considerably higher or the concentration of endogenous buffers is much lower in the digits than in the parent dendrites. In contrast, heterogeneities in the distribution of Ca(2+) pumps or in cytosolic fractional volume cannot account for the formation of [Ca(2+)](i) gradients in GrCs. Second, much lower amplitudes of fluorescence transients induced by depolarization and synaptic stimulation than expected from typical measurements of Ca(2+) and NMDA receptor-mediated currents can be reconciled with a pronounced slowing of the decay of fluorescence responses in the digits of GrCs after introducing a high-affinity Ca(2+) indicator if a high-capacity immobile Ca(2+) buffer (presumably plasma membrane-associated) is suggested to be present in the soma and apical part of digits. Mitochondria also are likely to modulate synaptically evoked Ca(2+) responses in GrCs. The alternative hypotheses are thoroughly discussed and research avenues for their testing in future experiments are proposed.

A limited contribution of Ca2+ current facilitation to paired-pulse facilitation of transmitter release at the rat calyx of Held

Recent studies have suggested that transmitter release facilitation at synapses is largely mediated by presynaptic Ca(2+) current facilitation, but the exact contribution of Ca(2+) current facilitation has not been determined quantitatively. Here, we determine the contribution of Ca(2+) current facilitation, and of an increase in the residual free Ca(2+) concentration ([Ca(2+)](i)) in the nerve terminal, to paired-pulse facilitation of transmitter release at the calyx of Held. Under conditions of low release probability imposed by brief presynaptic voltage-clamp steps, transmitter release facilitation at short interstimulus intervals (4 ms) was 227 +/- 31% of control, Ca(2+) current facilitation was 113 +/- 4% of control, and the peak residual [Ca(2+)](i) was 252 +/- 18 nm over baseline. By inferring the 'local' [Ca(2+)](i) transients that drive transmitter release during these voltage-clamp stimuli with the help of a kinetic release model, we estimate that Ca(2+) current facilitation contributes to approximately 40% to paired-pulse facilitation of transmitter release. The remaining component of facilitation strongly depends on the build-up, and on the decay of the residual free [Ca(2+)](i), but cannot be explained by linear summation of the residual free [Ca(2+)](i), and the back-calculated 'local' [Ca(2+)](i) signal, which only accounts for approximately 10% of the total release facilitation. Further voltage-clamp experiments designed to compensate for Ca(2+) current facilitation demonstrated that about half of the observed transmitter release facilitation remains in the absence of Ca(2+) current facilitation. Our results indicate that paired-pulse facilitation of transmitter release at the calyx of Held is driven by at least two distinct mechanisms: Ca(2+) current facilitation, and a mechanism independent of Ca(2+) current facilitation that closely tracks the time course of residual free [Ca(2+)](i).