251
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Zhang Y, Dudko OK. Statistical mechanics of viral entry. PHYSICAL REVIEW LETTERS 2015; 114:018104. [PMID: 25615507 DOI: 10.1103/physrevlett.114.018104] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/09/2014] [Indexed: 06/04/2023]
Abstract
Viruses that have lipid-membrane envelopes infect cells by fusing with the cell membrane to release viral genes. Membrane fusion is known to be hindered by high kinetic barriers associated with drastic structural rearrangements-yet viral infection, which occurs by fusion, proceeds on remarkably short time scales. Here, we present a quantitative framework that captures the principles behind the invasion strategy shared by all enveloped viruses. The key to this strategy-ligand-triggered conformational changes in the viral proteins that pull the membranes together-is treated as a set of concurrent, bias field-induced activated rate processes. The framework results in analytical solutions for experimentally measurable characteristics of virus-cell fusion and enables us to express the efficiency of the viral strategy in quantitative terms. The predictive value of the theory is validated through simulations and illustrated through recent experimental data on influenza virus infection.
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Affiliation(s)
- Yaojun Zhang
- Department of Physics, University of California at San Diego, La Jolla, California 92093, USA
| | - Olga K Dudko
- Department of Physics, University of California at San Diego, La Jolla, California 92093, USA
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252
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Different infectivity of HIV-1 strains is linked to number of envelope trimers required for entry. PLoS Pathog 2015; 11:e1004595. [PMID: 25569556 PMCID: PMC4287578 DOI: 10.1371/journal.ppat.1004595] [Citation(s) in RCA: 68] [Impact Index Per Article: 7.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/17/2014] [Accepted: 12/02/2014] [Indexed: 12/13/2022] Open
Abstract
HIV-1 enters target cells by virtue of envelope glycoprotein trimers that are incorporated at low density in the viral membrane. How many trimers are required to interact with target cell receptors to mediate virus entry, the HIV entry stoichiometry, still awaits clarification. Here, we provide estimates of the HIV entry stoichiometry utilizing a combined approach of experimental analyses and mathematical modeling. We demonstrate that divergent HIV strains differ in their stoichiometry of entry and require between 1 to 7 trimers, with most strains depending on 2 to 3 trimers to complete infection. Envelope modifications that perturb trimer structure lead to an increase in the entry stoichiometry, as did naturally occurring antibody or entry inhibitor escape mutations. Highlighting the physiological relevance of our findings, a high entry stoichiometry correlated with low virus infectivity and slow virus entry kinetics. The entry stoichiometry therefore directly influences HIV transmission, as trimer number requirements will dictate the infectivity of virus populations and efficacy of neutralizing antibodies. Thereby our results render consideration of stoichiometric concepts relevant for developing antibody-based vaccines and therapeutics against HIV. Our estimates of the HIV-1 entry stoichiometry, that is the number of envelope glycoprotein trimers needed to mediate fusion of viral and target cell membrane, close an important gap in our understanding of the HIV entry process. As we show, stoichiometric requirements for envelope trimers differ between HIV strains and steer virus entry efficacy and virus entry kinetics. Thus, the entry stoichiometry has important implications for HIV transmission, as demands on trimer numbers will dictate the infectivity of virus populations, target cell preferences and virus inactivation by trimer-targeting inhibitors and neutralizing antibodies. Beyond this, our data contribute to the general understanding of mechanisms and energetic requirements of protein-mediated membrane fusion, as HIV entry proved to follow similar stoichiometries as described for Influenza virus HA and SNARE protein mediated membrane fusion. In summary, our findings provide a relevant contribution towards a refined understanding of HIV-1 entry and pathogenesis with particular importance for ongoing efforts to generate neutralizing antibody based therapeutics and vaccines targeting the HIV-1 envelope trimer.
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253
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Liu T, Singh P, Jenkins JT, Jagota A, Bykhovskaia M, Hui CY. A continuum model of docking of synaptic vesicle to plasma membrane. J R Soc Interface 2015; 12:20141119. [PMID: 25551140 DOI: 10.1098/rsif.2014.1119] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022] Open
Abstract
Neurotransmitter release from neuronal terminals is governed by synaptic vesicle fusion. Vesicles filled with transmitters are docked at the neuronal membrane by means of the SNARE machinery. After a series of events leading up to the fusion pore formation, neurotransmitters are released into the synaptic cleft. In this paper, we study the mechanics of the docking process. A continuum model is used to determine the deformation of a spherical vesicle and a plasma membrane, under the influence of SNARE-machinery forces and electrostatic repulsion. Our analysis provides information on the variation of in-plane stress in the membranes, which is known to affect fusion. Also, a simple model is proposed to study hemifusion.
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254
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Frolov VA, Escalada A, Akimov SA, Shnyrova AV. Geometry of membrane fission. Chem Phys Lipids 2015; 185:129-40. [DOI: 10.1016/j.chemphyslip.2014.07.006] [Citation(s) in RCA: 37] [Impact Index Per Article: 4.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/12/2014] [Revised: 07/16/2014] [Accepted: 07/18/2014] [Indexed: 11/24/2022]
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255
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Lin CC, Seikowski J, Pérez-Lara A, Jahn R, Höbartner C, Walla PJ. Control of membrane gaps by synaptotagmin-Ca2+ measured with a novel membrane distance ruler. Nat Commun 2014; 5:5859. [PMID: 25500905 PMCID: PMC4275583 DOI: 10.1038/ncomms6859] [Citation(s) in RCA: 35] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/04/2014] [Accepted: 11/14/2014] [Indexed: 11/09/2022] Open
Abstract
Fast synchronous neurotransmitter release is triggered by calcium that activates synaptotagmin-1 (syt-1), resulting in fusion of synaptic vesicles with the presynaptic membrane. Syt-1 possesses two Ca(2+)-binding C2 domains that tether membranes via interactions with anionic phospholipids. It is capable of crosslinking membranes and has recently been speculated to trigger fusion by decreasing the gap between them. As quantitative information on membrane gaps is key to understanding general cellular mechanisms, including the role of syt-1, we developed a fluorescence-lifetime based inter-membrane distance ruler using membrane-anchored DNAs of various lengths as calibration standards. Wild-type and mutant data provide evidence that full-length syt-1 indeed regulates membrane gaps: without Ca(2+), syt-1 maintains membranes at distances of ~7-8 nm. Activation with 100 μM Ca(2+) decreases the distance to ~5 nm by binding the C2 domains to opposing membranes, respectively. These values reveal that activated syt-1 adjusts membrane distances to the level that promotes SNARE complex assembly.
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Affiliation(s)
- Chao-Chen Lin
- Research Group Biomolecular Spectroscopy and Single-Molecule Detection, Max Planck Institute for Biophysical Chemistry, Am Faßberg 11, 37077 Göttingen, Germany
| | - Jan Seikowski
- Research Group Nucleic Acid Chemistry, Max Planck Institute for Biophysical Chemistry, Am Faßberg 11, 37077 Göttingen, Germany
| | - Angel Pérez-Lara
- Department of Neurobiology, Max Planck Institute for Biophysical Chemistry, Am Faßberg 11, 37077 Göttingen, Germany
| | - Reinhard Jahn
- Department of Neurobiology, Max Planck Institute for Biophysical Chemistry, Am Faßberg 11, 37077 Göttingen, Germany
| | - Claudia Höbartner
- 1] Research Group Nucleic Acid Chemistry, Max Planck Institute for Biophysical Chemistry, Am Faßberg 11, 37077 Göttingen, Germany [2] Institute for Organic and Biomolecular Chemistry, Georg August University Göttingen, Tammannstraße 2, 37077 Göttingen, Germany
| | - Peter Jomo Walla
- 1] Research Group Biomolecular Spectroscopy and Single-Molecule Detection, Max Planck Institute for Biophysical Chemistry, Am Faßberg 11, 37077 Göttingen, Germany [2] Department of Biophysical Chemistry, Institute for Physical and Theoretical Chemistry, University of Braunschweig, Hans-Sommer-Straße 10, 38106 Braunschweig, Germany
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256
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Shah N, Colbert KN, Enos MD, Herschlag D, Weis WI. Three αSNAP and 10 ATP molecules are used in SNARE complex disassembly by N-ethylmaleimide-sensitive factor (NSF). J Biol Chem 2014; 290:2175-88. [PMID: 25492864 DOI: 10.1074/jbc.m114.620849] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022] Open
Abstract
The fusion of intracellular membranes is driven by the formation of a highly stable four-helix bundle of SNARE proteins embedded in the vesicle and target membranes. N-Ethylmaleimide sensitive factor recycles SNAREs after fusion by binding to the SNARE complex through an adaptor protein, αSNAP, and using the energy of ATP hydrolysis to disassemble the complex. Although only a single molecule of αSNAP binds to a soluble form of the SNARE complex, we find that three molecules of αSNAP are used for SNARE complex disassembly. We describe an engineered αSNAP trimer that supports more efficient SNARE complex disassembly than monomeric αSNAP. Using the trimerized αSNAP, we find that N-ethylmaleimide-sensitive factor hydrolyzes 10 ATP molecules on average to disassemble a single SNARE complex.
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Affiliation(s)
- Niket Shah
- From the Departments of Structural Biology, Molecular and Cellular Physiology, and
| | - Karen N Colbert
- From the Departments of Structural Biology, Molecular and Cellular Physiology, and
| | - Michael D Enos
- From the Departments of Structural Biology, Molecular and Cellular Physiology, and
| | - Daniel Herschlag
- Biochemistry, Stanford University School of Medicine, Stanford, California 94305
| | - William I Weis
- From the Departments of Structural Biology, Molecular and Cellular Physiology, and
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257
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Wang H, Wang B, Normoyle KP, Jackson K, Spitler K, Sharrock MF, Miller CM, Best C, Llano D, Du R. Brain temperature and its fundamental properties: a review for clinical neuroscientists. Front Neurosci 2014; 8:307. [PMID: 25339859 PMCID: PMC4189373 DOI: 10.3389/fnins.2014.00307] [Citation(s) in RCA: 183] [Impact Index Per Article: 18.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/03/2014] [Accepted: 09/12/2014] [Indexed: 01/13/2023] Open
Abstract
Brain temperature, as an independent therapeutic target variable, has received increasingly intense clinical attention. To date, brain hypothermia represents the most potent neuroprotectant in laboratory studies. Although the impact of brain temperature is prevalent in a number of common human diseases including: head trauma, stroke, multiple sclerosis, epilepsy, mood disorders, headaches, and neurodegenerative disorders, it is evident and well recognized that the therapeutic application of induced hypothermia is limited to a few highly selected clinical conditions such as cardiac arrest and hypoxic ischemic neonatal encephalopathy. Efforts to understand the fundamental aspects of brain temperature regulation are therefore critical for the development of safe, effective, and pragmatic clinical treatments for patients with brain injuries. Although centrally-mediated mechanisms to maintain a stable body temperature are relatively well established, very little is clinically known about brain temperature's spatial and temporal distribution, its physiological and pathological fluctuations, and the mechanism underlying brain thermal homeostasis. The human brain, a metabolically "expensive" organ with intense heat production, is sensitive to fluctuations in temperature with regards to its functional activity and energy efficiency. In this review, we discuss several critical aspects concerning the fundamental properties of brain temperature from a clinical perspective.
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Affiliation(s)
- Huan Wang
- Department of Neurosurgery, Carle Foundation Hospital, University of Illinois College of Medicine at Urbana-ChampaignUrbana, IL, USA
- Thermal Neuroscience Laboratory, Beckman Institute, University of Illinois at Urbana-ChampaignUrbana, IL, USA
| | - Bonnie Wang
- Department of Internal Medicine, Carle Foundation Hospital, University of Illinois College of Medicine at Urbana-ChampaignUrbana, IL, USA
| | - Kieran P. Normoyle
- Department of Internal Medicine, College of Medicine at Urbana-Champaign, University of IllinoisChampaign, Urbana, IL, USA
- Department of Molecular and Integrative Physiology, University of Illinois College of Medicine at Urbana-ChampaignUrbana, IL, USA
| | - Kevin Jackson
- Thermal Neuroscience Laboratory, Beckman Institute, University of Illinois at Urbana-ChampaignUrbana, IL, USA
| | - Kevin Spitler
- Department of Internal Medicine, Carle Foundation Hospital, University of Illinois College of Medicine at Urbana-ChampaignUrbana, IL, USA
| | - Matthew F. Sharrock
- Department of Internal Medicine, College of Medicine at Urbana-Champaign, University of IllinoisChampaign, Urbana, IL, USA
| | - Claire M. Miller
- Department of Internal Medicine, College of Medicine at Urbana-Champaign, University of IllinoisChampaign, Urbana, IL, USA
- Neuroscience Program, University of Illinois at Urbana-ChampaignUrbana, IL, USA
| | - Catherine Best
- Molecular and Cellular Biology, University of Illinois at Urbana-ChampaignUrbana, IL, USA
| | - Daniel Llano
- Thermal Neuroscience Laboratory, Beckman Institute, University of Illinois at Urbana-ChampaignUrbana, IL, USA
- Department of Molecular and Integrative Physiology, University of Illinois College of Medicine at Urbana-ChampaignUrbana, IL, USA
| | - Rose Du
- Department of Neurosurgery, Brigham and Women's Hospital, Harvard Medical SchoolBoston, MA, USA
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258
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Ma J, Kelly L, Ingram J, Price TJ, Meriney SD, Dittrich M. New insights into short-term synaptic facilitation at the frog neuromuscular junction. J Neurophysiol 2014; 113:71-87. [PMID: 25210157 DOI: 10.1152/jn.00198.2014] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022] Open
Abstract
Short-term synaptic facilitation occurs during high-frequency stimulation, is known to be dependent on presynaptic calcium ions, and persists for tens of milliseconds after a presynaptic action potential. We have used the frog neuromuscular junction as a model synapse for both experimental and computer simulation studies aimed at testing various mechanistic hypotheses proposed to underlie short-term synaptic facilitation. Building off our recently reported excess-calcium-binding-site model of synaptic vesicle release at the frog neuromuscular junction (Dittrich M, Pattillo JM, King JD, Cho S, Stiles JR, Meriney SD. Biophys J 104: 2751-2763, 2013), we have investigated several mechanisms of short-term facilitation at the frog neuromuscular junction. Our studies place constraints on previously proposed facilitation mechanisms and conclude that the presence of a second class of calcium sensor proteins distinct from synaptotagmin can explain known properties of facilitation observed at the frog neuromuscular junction. We were further able to identify a novel facilitation mechanism, which relied on the persistent binding of calcium-bound synaptotagmin molecules to lipids of the presynaptic membrane. In a real physiological context, both mechanisms identified in our study (and perhaps others) may act simultaneously to cause the experimentally observed facilitation. In summary, using a combination of computer simulations and physiological recordings, we have developed a stochastic computer model of synaptic transmission at the frog neuromuscular junction, which sheds light on the facilitation mechanisms in this model synapse.
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Affiliation(s)
- Jun Ma
- Biomedical Applications Group, Pittsburgh Supercomputing Center, Carnegie Mellon University, Pittsburgh, Pennsylvania; Joint Carnegie Mellon-University of Pittsburgh PhD Program in Computational Biology, School of Computer Science, Carnegie Mellon University, Pittsburgh, Pennsylvania
| | - Lauren Kelly
- Department of Neuroscience, University of Pittsburgh, Pittsburgh, Pennsylvania; and
| | - Justin Ingram
- Department of Neuroscience, University of Pittsburgh, Pittsburgh, Pennsylvania; and
| | - Thomas J Price
- Department of Neuroscience, University of Pittsburgh, Pittsburgh, Pennsylvania; and
| | - Stephen D Meriney
- Department of Neuroscience, University of Pittsburgh, Pittsburgh, Pennsylvania; and
| | - Markus Dittrich
- Biomedical Applications Group, Pittsburgh Supercomputing Center, Carnegie Mellon University, Pittsburgh, Pennsylvania; Department of Neuroscience, University of Pittsburgh, Pittsburgh, Pennsylvania; and Department of Computational and Systems Biology, University of Pittsburgh, Pittsburgh, Pennsylvania
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259
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Zorman S, Rebane AA, Ma L, Yang G, Molski MA, Coleman J, Pincet F, Rothman JE, Zhang Y. Common intermediates and kinetics, but different energetics, in the assembly of SNARE proteins. eLife 2014; 3:e03348. [PMID: 25180101 PMCID: PMC4166003 DOI: 10.7554/elife.03348] [Citation(s) in RCA: 70] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/13/2014] [Accepted: 08/29/2014] [Indexed: 01/10/2023] Open
Abstract
Soluble N-ethylmaleimide-sensitive factor attachment protein receptors (SNAREs) are evolutionarily conserved machines that couple their folding/assembly to membrane fusion. However, it is unclear how these processes are regulated and function. To determine these mechanisms, we characterized the folding energy and kinetics of four representative SNARE complexes at a single-molecule level using high-resolution optical tweezers. We found that all SNARE complexes assemble by the same step-wise zippering mechanism: slow N-terminal domain (NTD) association, a pause in a force-dependent half-zippered intermediate, and fast C-terminal domain (CTD) zippering. The energy release from CTD zippering differs for yeast (13 kBT) and neuronal SNARE complexes (27 kBT), and is concentrated at the C-terminal part of CTD zippering. Thus, SNARE complexes share a conserved zippering pathway and polarized energy release to efficiently drive membrane fusion, but generate different amounts of zippering energy to regulate fusion kinetics. DOI:http://dx.doi.org/10.7554/eLife.03348.001 Many processes in living things need molecules to be transported within, or between, cells. For example, damaged or waste molecules are transported within a cell to structures that can break the molecules down, while nerve impulses are transmitted from one neuron to the next via the release of signaling molecules. Cells—and the compartments within cells—are surrounded by membranes that act as barriers to certain molecules. Vesicles are small, membrane-enclosed packages that are used to transport molecules between different membranes; and in order to release its cargo, a vesicle must fuse with its target membrane. To fuse like this, the forces that act to push membranes away from one another need to be overcome. Proteins called SNARES, which are embedded in both membranes, are the molecular engines that power the fusion process. Once the SNARE proteins from the vesicle and the target membrane bind, they assemble into a more compact complex that pulls the two membranes close together and allows fusion to take place. The final shape of an assembled SNARE complex is essentially the same for all SNARE complexes; however, it is not known whether all of these complexes fold using the same method. Now Zorman et al. have used optical tweezers—an instrument that uses a highly focused laser beam to hold and manipulate microscopic objects—to observe the folding and unfolding of four different types of SNARE complex. All four SNARE complexes followed the same step-by-step process: the leading ends of the SNARE proteins slowly bound to each other; the process paused; then the rest of the proteins rapidly ‘zippered’ together. Zorman et al. revealed that, although the steps in the processes were the same, the energy released in the last step was different when different complexes assembled. This suggests that the energy released by the ‘zippering’ of different SNARE proteins is optimized to match the required speed of different membrane fusion events. Furthermore, Zorman et al. propose that the reason why the majority of energy is released in the later stages of complex assembly is because this is when the repulsion between the two membranes is strongest. The discoveries of Zorman et al. will now aid future efforts aimed at understanding better how the numerous other proteins that interact with SNARE proteins regulate the process of membrane fusion. DOI:http://dx.doi.org/10.7554/eLife.03348.002
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Affiliation(s)
- Sylvain Zorman
- Department of Cell Biology, Yale University School of Medicine, New Haven, United States
| | | | - Lu Ma
- Department of Cell Biology, Yale University School of Medicine, New Haven, United States
| | - Guangcan Yang
- Department of Cell Biology, Yale University School of Medicine, New Haven, United States
| | - Matthew A Molski
- Department of Cell Biology, Yale University School of Medicine, New Haven, United States
| | - Jeff Coleman
- Department of Cell Biology, Yale University School of Medicine, New Haven, United States
| | - Frederic Pincet
- Department of Cell Biology, Yale University School of Medicine, New Haven, United States
| | - James E Rothman
- Department of Cell Biology, Yale University School of Medicine, New Haven, United States
| | - Yongli Zhang
- Department of Cell Biology, Yale University School of Medicine, New Haven, United States
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260
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Abstract
Folding may be described conceptually in terms of trajectories over a landscape of free energies corresponding to different molecular configurations. In practice, energy landscapes can be difficult to measure. Single-molecule force spectroscopy (SMFS), whereby structural changes are monitored in molecules subjected to controlled forces, has emerged as a powerful tool for probing energy landscapes. We summarize methods for reconstructing landscapes from force spectroscopy measurements under both equilibrium and nonequilibrium conditions. Other complementary, but technically less demanding, methods provide a model-dependent characterization of key features of the landscape. Once reconstructed, energy landscapes can be used to study critical folding parameters, such as the characteristic transition times required for structural changes and the effective diffusion coefficient setting the timescale for motions over the landscape. We also discuss issues that complicate measurement and interpretation, including the possibility of multiple states or pathways and the effects of projecting multiple dimensions onto a single coordinate.
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Affiliation(s)
- Michael T Woodside
- Department of Physics, University of Alberta, Edmonton, Alberta T6G2E1, Canada;
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261
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Abstract
The soluble N-ethylmaleimide-sensitive factor attachment protein receptor (SNARE) complex drives the majority of intracellular and exocytic membrane fusion events. Whether and how SNAREs cooperate to mediate fusion has been a subject of intense study, with estimates ranging from a single SNARE complex to 15. Here we show that there is no universally conserved number of SNARE complexes involved as revealed by our observation that this varies greatly depending on membrane curvature. When docking rates of small (∼40 nm) and large (∼100 nm) liposomes reconstituted with different synaptobrevin (the SNARE present in synaptic vesicles) densities are taken into account, the lipid mixing efficiency was maximal with small liposomes with only one synaptobrevin, whereas 23-30 synaptobrevins were necessary for efficient lipid mixing in large liposomes. Our results can be rationalized in terms of strong and weak cooperative coupling of SNARE complex assembly where each mode implicates different intermediate states of fusion that have been recently identified by electron microscopy. We predict that even higher variability in cooperativity is present in different physiological scenarios of fusion, and we further hypothesize that plasticity of SNAREs to engage in different coupling modes is an important feature of the biologically ubiquitous SNARE-mediated fusion reactions.
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262
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263
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Rothman JE. The principle of membrane fusion in the cell (Nobel lecture). Angew Chem Int Ed Engl 2014; 53:12676-94. [PMID: 25087728 DOI: 10.1002/anie.201402380] [Citation(s) in RCA: 100] [Impact Index Per Article: 10.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/13/2014] [Indexed: 01/06/2023]
Abstract
Cells contain small membrane-enclosed vesicles which transport many kinds of cargo between the compartments of the cell. The result is a choreographed program of secretory, biosynthetic, and endocytic protein traffic that serves the cell's internal physiologic needs.
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Affiliation(s)
- James Edward Rothman
- Department of Cell Biology, Yale University, 333 Cedar Street, CT 06520 New Haven (USA)
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264
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Unzipping of neuronal snare protein with steered molecular dynamics occurs in three steps. J Mol Model 2014; 20:2381. [DOI: 10.1007/s00894-014-2381-7] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/01/2014] [Accepted: 07/15/2014] [Indexed: 01/03/2023]
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265
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Yu H, Rathore SS, Gulbranson DR, Shen J. The N- and C-terminal domains of tomosyn play distinct roles in soluble N-ethylmaleimide-sensitive factor attachment protein receptor binding and fusion regulation. J Biol Chem 2014; 289:25571-80. [PMID: 25063806 DOI: 10.1074/jbc.m114.591487] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022] Open
Abstract
Tomosyn negatively regulates SNARE-dependent exocytic pathways including insulin secretion, GLUT4 exocytosis, and neurotransmitter release. The molecular mechanism of tomosyn, however, has not been fully elucidated. Here, we reconstituted SNARE-dependent fusion reactions in vitro to recapitulate the tomosyn-regulated exocytic pathways. We then expressed and purified active full-length tomosyn and examined how it regulates the reconstituted SNARE-dependent fusion reactions. Using these defined fusion assays, we demonstrated that tomosyn negatively regulates SNARE-mediated membrane fusion by inhibiting the assembly of the ternary SNARE complex. Tomosyn recognizes the t-SNARE complex and prevents its pairing with the v-SNARE, therefore arresting the fusion reaction at a pre-docking stage. The inhibitory function of tomosyn is mediated by its C-terminal domain (CTD) that contains an R-SNARE-like motif, confirming previous studies carried out using truncated tomosyn fragments. Interestingly, the N-terminal domain (NTD) of tomosyn is critical (but not sufficient) to the binding of tomosyn to the syntaxin monomer, indicating that full-length tomosyn possesses unique features not found in the widely studied CTD fragment. Finally, we showed that the inhibitory function of tomosyn is dominant over the stimulatory activity of the Sec1/Munc18 protein in fusion. We suggest that tomosyn uses its CTD to arrest SNARE-dependent fusion reactions, whereas its NTD is required for the recruitment of tomosyn to vesicle fusion sites through syntaxin interaction.
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Affiliation(s)
- Haijia Yu
- From the Department of Molecular, Cellular and Developmental Biology, University of Colorado, Boulder, Colorado 80309
| | - Shailendra S Rathore
- From the Department of Molecular, Cellular and Developmental Biology, University of Colorado, Boulder, Colorado 80309
| | - Daniel R Gulbranson
- From the Department of Molecular, Cellular and Developmental Biology, University of Colorado, Boulder, Colorado 80309
| | - Jingshi Shen
- From the Department of Molecular, Cellular and Developmental Biology, University of Colorado, Boulder, Colorado 80309
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266
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Sequence-resolved free energy profiles of stress-bearing vimentin intermediate filaments. Proc Natl Acad Sci U S A 2014; 111:11359-64. [PMID: 25049381 DOI: 10.1073/pnas.1403122111] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
Intermediate filaments (IFs) are key to the mechanical strength of metazoan cells. Their basic building blocks are dimeric coiled coils mediating hierarchical assembly of the full-length filaments. Here we use single-molecule force spectroscopy by optical tweezers to assess the folding and stability of coil 2B of the model IF protein vimentin. The coiled coil was unzipped from its N and C termini. When pulling from the C terminus, we observed that the coiled coil was resistant to force owing to the high stability of the C-terminal region. Pulling from the N terminus revealed that the N-terminal half is considerably less stable. The mechanical pulling assay is a unique tool to study and control seed formation and structure propagation of the coiled coil. We then used rigorous theory-based deconvolution for a model-free extraction of the energy landscape and local stability profiles. The data obtained from the two distinct pulling directions complement each other and reveal a tripartite stability of the coiled coil: a labile N-terminal half, followed by a medium stability section and a highly stable region at the far C-terminal end. The different stability regions provide important insight into the mechanics of IF assembly.
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267
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Expansion of the fusion stalk and its implication for biological membrane fusion. Proc Natl Acad Sci U S A 2014; 111:11043-8. [PMID: 25024174 DOI: 10.1073/pnas.1323221111] [Citation(s) in RCA: 77] [Impact Index Per Article: 7.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
Over the past 20 years, it has been widely accepted that membrane fusion proceeds via a hemifusion step before opening of the productive fusion pore. An initial hourglass-shaped lipid structure, the fusion stalk, is formed between the adjacent membrane leaflets (cis leaflets). It remains controversial if and how fusion proteins drive the subsequent transition (expansion) of the stalk into a fusion pore. Here, we propose a comprehensive and consistent thermodynamic understanding in terms of the underlying free-energy landscape of stalk expansion. We illustrate how the underlying free energy landscape of stalk expansion and the concomitant pathway is altered by subtle differences in membrane environment, such as leaflet composition, asymmetry, and flexibility. Nonleaky stalk expansion (stalk widening) requires the formation of a critical trans-leaflet contact. The fusion machinery can mechanically enforce trans-leaflet contact formation either by directly enforcing the trans-leaflets in close proximity, or by (electrostatically) condensing the area of the cis leaflets. The rate of these fast fusion reactions may not be primarily limited by the energetics but by the forces that the fusion proteins are able to exert.
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268
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Fuxreiter M, Tóth-Petróczy Á, Kraut DA, Matouschek AT, Lim RYH, Xue B, Kurgan L, Uversky VN. Disordered proteinaceous machines. Chem Rev 2014; 114:6806-43. [PMID: 24702702 PMCID: PMC4350607 DOI: 10.1021/cr4007329] [Citation(s) in RCA: 94] [Impact Index Per Article: 9.4] [Reference Citation Analysis] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/27/2013] [Indexed: 12/18/2022]
Affiliation(s)
- Monika Fuxreiter
- MTA-DE
Momentum Laboratory of Protein Dynamics, Department of Biochemistry
and Molecular Biology, University of Debrecen, Nagyerdei krt. 98, H-4032 Debrecen, Hungary
| | - Ágnes Tóth-Petróczy
- Department
of Biological Chemistry, Weizmann Institute
of Science, Rehovot 7610001, Israel
| | - Daniel A. Kraut
- Department
of Chemistry, Villanova University, 800 East Lancaster Avenue, Villanova, Pennsylvania 19085, United States
| | - Andreas T. Matouschek
- Section
of Molecular Genetics and Microbiology, Institute for Cellular &
Molecular Biology, The University of Texas
at Austin, 2506 Speedway, Austin, Texas 78712, United States
| | - Roderick Y. H. Lim
- Biozentrum
and the Swiss Nanoscience Institute, University
of Basel, Klingelbergstrasse
70, CH-4056 Basel, Switzerland
| | - Bin Xue
- Department of Cell Biology,
Microbiology and Molecular Biology, College
of Fine Arts and Sciences, and Department of Molecular Medicine and USF Health
Byrd Alzheimer’s Research Institute, Morsani College of Medicine, University of South Florida, Tampa, Florida 33612, United States
| | - Lukasz Kurgan
- Department
of Electrical and Computer Engineering, University of Alberta, Edmonton, AB T6G 2R3, Canada
| | - Vladimir N. Uversky
- Department of Cell Biology,
Microbiology and Molecular Biology, College
of Fine Arts and Sciences, and Department of Molecular Medicine and USF Health
Byrd Alzheimer’s Research Institute, Morsani College of Medicine, University of South Florida, Tampa, Florida 33612, United States
- Institute
for Biological Instrumentation, Russian
Academy of Sciences, 142290 Pushchino, Moscow Region 119991, Russia
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269
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Shrestha P, Xiao S, Dhakal S, Tan Z, Mao H. Nascent RNA transcripts facilitate the formation of G-quadruplexes. Nucleic Acids Res 2014; 42:7236-46. [PMID: 24829453 PMCID: PMC4066803 DOI: 10.1093/nar/gku416] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/29/2022] Open
Abstract
Recent discovery of the RNA/DNA hybrid G-quadruplexes (HQs) and their potential wide-spread occurrence in human genome during transcription have suggested a new and generic transcriptional control mechanism. The G-rich sequence in which HQ may form can coincide with that for DNA G-quadruplexes (GQs), which are well known to modulate transcriptions. Understanding the molecular interaction between HQ and GQ is, therefore, of pivotal importance to dissect the new mechanism for transcriptional regulation. Using a T7 transcription model, herein we found that GQ and HQ form in a natural sequence, (GGGGA)4, downstream of many transcription start sites. Using a newly-developed single-molecular stalled-transcription assay, we revealed that RNA transcripts helped to populate quadruplexes at the expense of duplexes. Among quadruplexes, HQ predominates GQ in population and mechanical stabilities, suggesting HQ may serve as a better mechanical block during transcription. The fact that HQ and GQ folded within tens of milliseconds in the presence of RNA transcripts provided justification for the co-transcriptional folding of these species. The catalytic role of RNA transcripts in the GQ formation was strongly suggested as the GQ folded >7 times slower without transcription. These results shed light on the possible synergistic effect of GQs and HQs on transcriptional controls.
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Affiliation(s)
- Prakash Shrestha
- Department of Chemistry and Biochemistry and School of Biomedical Sciences, Kent State University, Kent, OH 44242, USA
| | - Shan Xiao
- State Key Laboratory of Biomembrane and Membrane Biotechnology, Institute of Zoology, Chinese Academy of Sciences, Beijing 100101, P.R. China
| | - Soma Dhakal
- Department of Chemistry and Biochemistry and School of Biomedical Sciences, Kent State University, Kent, OH 44242, USA
| | - Zheng Tan
- State Key Laboratory of Biomembrane and Membrane Biotechnology, Institute of Zoology, Chinese Academy of Sciences, Beijing 100101, P.R. China
| | - Hanbin Mao
- Department of Chemistry and Biochemistry and School of Biomedical Sciences, Kent State University, Kent, OH 44242, USA
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270
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Trimbuch T, Xu J, Flaherty D, Tomchick DR, Rizo J, Rosenmund C. Re-examining how complexin inhibits neurotransmitter release. eLife 2014; 3:e02391. [PMID: 24842998 PMCID: PMC4040926 DOI: 10.7554/elife.02391] [Citation(s) in RCA: 60] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/28/2022] Open
Abstract
Complexins play activating and inhibitory functions in neurotransmitter release. The complexin accessory helix inhibits release and was proposed to insert into SNARE complexes to prevent their full assembly. This model was supported by ‘superclamp’ and ‘poor-clamp’ mutations that enhanced or decreased the complexin-I inhibitory activity in cell–cell fusion assays, and by the crystal structure of a superclamp mutant bound to a synaptobrevin-truncated SNARE complex. NMR studies now show that the complexin-I accessory helix does not insert into synaptobrevin-truncated SNARE complexes in solution, and electrophysiological data reveal that superclamp mutants have slightly stimulatory or no effects on neurotransmitter release, whereas a poor-clamp mutant inhibits release. Importantly, increasing or decreasing the negative charge of the complexin-I accessory helix inhibits or stimulates release, respectively. These results suggest a new model whereby the complexin accessory helix inhibits release through electrostatic (and perhaps steric) repulsion enabled by its location between the vesicle and plasma membranes. DOI:http://dx.doi.org/10.7554/eLife.02391.001 The instructions sent to, from and within the brain are rapidly transmitted along neurons in the form of electrical signals. These signals cannot pass across the small gaps—called synapses—that separate neighboring neurons. Instead, neurons release chemicals called neurotransmitters into the synapses, and these relay the signal to the next neuron. The neurotransmitters are stored inside neurons in small bubbles called vesicles. To release these neurotransmitters into the synapse, the membrane that encloses the vesicle fuses with the membrane that surrounds the neuron. To fuse the membranes, proteins embedded in the vesicle membrane interact with similar proteins in the neuron membrane to form a structure called a SNARE complex. Additional proteins control membrane fusion to ensure that the signal is passed to the other neuron at the right time and with the appropriate efficiency. Among these proteins are the complexins, which are often found attached to SNARE complexes. Although different parts of complexins can both help and hinder membrane fusion, a part known as an accessory helix is thought to have only one role—to stop the membranes from fusing together. Several models have been suggested for how the accessory helix interferes with fusion. However, after performing a range of analyses by diverse biophysical techniques, Trimbuch, Xu et al. suggest these models are unlikely to describe the process accurately. Instead, Trimbuch, Xu et al. propose a new model based on the electrostatic properties of two molecules that are both negatively charged. An accessory helix taken from a fruit fly complexin was more negatively charged than a mammalian version, and experiments showed it was also better at preventing the release of neurotransmitters. It is thought that the negative charges on the helix hold the membranes apart because the helix is located between the membranes, which are also negatively charged. Consistent with this model, Trimbuch, Xu et al. showed that the membranes fused more easily when some of the negative charges on the accessory helix were replaced with positive charges. The next challenges are to test the model further with additional studies, and to explain how other proteins work with complexins to control neurotransmitter release. DOI:http://dx.doi.org/10.7554/eLife.02391.002
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Affiliation(s)
- Thorsten Trimbuch
- NeuroCure Cluster of Excellence, Neuroscience Research Center, Charité-Universitätsmedizin Berlin, Berlin, Germany
| | - Junjie Xu
- Department of Biophysics, University of Texas Southwestern Medical Center, Dallas, United States
| | - David Flaherty
- Department of Biophysics, University of Texas Southwestern Medical Center, Dallas, United States
| | - Diana R Tomchick
- Department of Biophysics, University of Texas Southwestern Medical Center, Dallas, United States
| | - Josep Rizo
- Department of Biophysics, University of Texas Southwestern Medical Center, Dallas, United States Department of Biochemistry, University of Texas Southwestern Medical Center, Dallas, United States Department of Pharmacology, University of Texas Southwestern Medical Center, Dallas, United States
| | - Christian Rosenmund
- NeuroCure Cluster of Excellence, Neuroscience Research Center, Charité-Universitätsmedizin Berlin, Berlin, Germany
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271
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Multiple conformations of a single SNAREpin between two nanodisc membranes reveal diverse pre-fusion states. Biochem J 2014; 459:95-102. [PMID: 24456382 DOI: 10.1042/bj20131668] [Citation(s) in RCA: 31] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/31/2023]
Abstract
SNAREpins must be formed between two membranes to allow vesicle fusion, a required process for neurotransmitter release. Although its post-fusion structure has been well characterized, pre-fusion conformations have been elusive. We used single-molecule FRET and EPR to investigate the SNAREpin assembled between two nanodisc membranes. The SNAREpin shows at least three distinct dynamic states, which might represent pre-fusion intermediates. Although the N-terminal half above the conserved ionic layer maintains a robust helical bundle structure, the membrane-proximal C-terminal half shows high FRET, representing a helical bundle (45%), low FRET, reflecting a frayed conformation (39%) or mid FRET revealing an as-yet unidentified structure (16%). It is generally thought that SNAREpins are trapped at a partially zipped conformation in the pre-fusion state, and complete SNARE (soluble N-ethylmaleimide-sensitive factor-attachment protein receptor) assembly happens concomitantly with membrane fusion. However, our results show that the complete SNARE complex can be formed without membrane fusion, which suggests that the complete SNAREpin formation could precede membrane fusion, providing an ideal access to the fusion regulators such as complexins and synaptotagmin 1.
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272
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Park Y, Vennekate W, Yavuz H, Preobraschenski J, Hernandez JM, Riedel D, Walla PJ, Jahn R. α-SNAP interferes with the zippering of the SNARE protein membrane fusion machinery. J Biol Chem 2014; 289:16326-35. [PMID: 24778182 DOI: 10.1074/jbc.m114.556803] [Citation(s) in RCA: 29] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022] Open
Abstract
Neuronal exocytosis is mediated by soluble N-ethylmaleimide-sensitive factor attachment protein receptor (SNARE) proteins. Before fusion, SNARE proteins form complexes bridging the membrane followed by assembly toward the C-terminal membrane anchors, thus initiating membrane fusion. After fusion, the SNARE complex is disassembled by the AAA-ATPase N-ethylmaleimide-sensitive factor that requires the cofactor α-SNAP to first bind to the assembled SNARE complex. Using chromaffin granules and liposomes we now show that α-SNAP on its own interferes with the zippering of membrane-anchored SNARE complexes midway through the zippering reaction, arresting SNAREs in a partially assembled trans-complex and preventing fusion. Intriguingly, the interference does not result in an inhibitory effect on synaptic vesicles, suggesting that membrane properties also influence the final outcome of α-SNAP interference with SNARE zippering. We suggest that binding of α-SNAP to the SNARE complex affects the ability of the SNARE complex to harness energy or transmit force to the membrane.
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Affiliation(s)
| | - Wensi Vennekate
- From the Department of Neurobiology, the AG Biomolecular Spectroscopy and Single-Molecule Detection, and
| | | | | | | | - Dietmar Riedel
- the Facility for Electron Microscopy, Max-Planck-Institute for Biophysical Chemistry, 37077 Göttingen and
| | - Peter Jomo Walla
- the AG Biomolecular Spectroscopy and Single-Molecule Detection, and the Department of Biophysical Chemistry, Institute for Physical and Theoretical Chemistry, Technical University of Braunschweig, 38106 Braunschweig, Germany
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273
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Prashad RC, Charlton MP. SNARE zippering and synaptic strength. PLoS One 2014; 9:e95130. [PMID: 24747882 PMCID: PMC3991612 DOI: 10.1371/journal.pone.0095130] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/28/2013] [Accepted: 03/25/2014] [Indexed: 01/26/2023] Open
Abstract
Synapses vary widely in the probability of neurotransmitter release. We tested the hypothesis that the zippered state of the trans-SNARE (Soluble N-ethylmaleimide-sensitive factor Attachment protein REceptor) complex determines initial release probability. We tested this hypothesis at phasic and tonic synapses which differ by 100-1000-fold in neurotransmitter release probability. We injected, presynaptically, three Clostridial neurotoxins which bind and cleave at different sites on VAMP to determine whether these sites were occluded by the zippering of the SNARE complex or open to proteolytic attack. Under low stimulation conditions, the catalytic light-chain fragment of botulinum B (BoNT/B-LC) inhibited evoked release at both phasic and tonic synapses and cleaved VAMP; however, neither BoNT/D-LC nor tetanus neurotoxin (TeNT-LC) were effective in these conditions. The susceptibility of VAMP to only BoNT/B-LC indicated that SNARE complexes at both phasic and tonic synapses were partially zippered only at the N-terminal end to approximately the zero-layer with the C-terminal end exposed under resting state. Therefore, the existence of the same partially zippered state of the trans-SNARE complex at both phasic and tonic synapses indicates that release probability is not determined solely by the zippered state of the trans-SNARE complex at least to the zero-layer.
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Affiliation(s)
- Rene C. Prashad
- Department of Physiology, University of Toronto, Toronto, Ontario, Canada
| | - Milton P. Charlton
- Department of Physiology, University of Toronto, Toronto, Ontario, Canada
- * E-mail:
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274
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Mechanical activation of vinculin binding to talin locks talin in an unfolded conformation. Sci Rep 2014; 4:4610. [PMID: 24714394 PMCID: PMC3980218 DOI: 10.1038/srep04610] [Citation(s) in RCA: 221] [Impact Index Per Article: 22.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/03/2014] [Accepted: 03/21/2014] [Indexed: 11/08/2022] Open
Abstract
The force-dependent interaction between talin and vinculin plays a crucial role in the initiation and growth of focal adhesions. Here we use magnetic tweezers to characterise the mechano-sensitive compact N-terminal region of the talin rod, and show that the three helical bundles R1–R3 in this region unfold in three distinct steps consistent with the domains unfolding independently. Mechanical stretching of talin R1–R3 enhances its binding to vinculin and vinculin binding inhibits talin refolding after force is released. Mutations that stabilize R3 identify it as the initial mechano-sensing domain in talin, unfolding at ∼5 pN, suggesting that 5 pN is the force threshold for vinculin binding and adhesion progression.
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275
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Petkovic M, Jemaiel A, Daste F, Specht CG, Izeddin I, Vorkel D, Verbavatz JM, Darzacq X, Triller A, Pfenninger KH, Tareste D, Jackson CL, Galli T. The SNARE Sec22b has a non-fusogenic function in plasma membrane expansion. Nat Cell Biol 2014; 16:434-44. [PMID: 24705552 DOI: 10.1038/ncb2937] [Citation(s) in RCA: 103] [Impact Index Per Article: 10.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/19/2013] [Accepted: 02/20/2014] [Indexed: 12/13/2022]
Abstract
Development of the nervous system requires extensive axonal and dendritic growth during which neurons massively increase their surface area. Here we report that the endoplasmic reticulum (ER)-resident SNARE Sec22b has a conserved non-fusogenic function in plasma membrane expansion. Sec22b is closely apposed to the plasma membrane SNARE syntaxin1. Sec22b forms a trans-SNARE complex with syntaxin1 that does not include SNAP23/25/29, and does not mediate fusion. Insertion of a long rigid linker between the SNARE and transmembrane domains of Sec22b extends the distance between the ER and plasma membrane, and impairs neurite growth but not the secretion of VSV-G. In yeast, Sec22 interacts with lipid transfer proteins, and inhibition of Sec22 leads to defects in lipid metabolism at contact sites between the ER and plasma membrane. These results suggest that close apposition of the ER and plasma membrane mediated by Sec22 and plasma membrane syntaxins generates a non-fusogenic SNARE bridge contributing to plasma membrane expansion, probably through non-vesicular lipid transfer.
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Affiliation(s)
- Maja Petkovic
- 1] INSERM, U950, F-75013 Paris, France [2] Université Paris Diderot, Sorbonne Paris Cité, ERL U950, F-75013 Paris, France [3] CNRS, UMR 7592, Institut Jacques Monod, F-75013 Paris, France [4] Ecole des Neurosciences de Paris (ENP), F-75006 Paris, France [5]
| | - Aymen Jemaiel
- 1] CNRS, UMR 7592, Institut Jacques Monod, F-75013 Paris, France [2] Membrane Dynamics and Intracellular Trafficking, Institute Jacques Monod, F-75013 Paris, France [3]
| | - Frédéric Daste
- 1] INSERM, U950, F-75013 Paris, France [2] Université Paris Diderot, Sorbonne Paris Cité, ERL U950, F-75013 Paris, France [3] CNRS, UMR 7592, Institut Jacques Monod, F-75013 Paris, France [4] Ecole Doctorale Frontières du Vivant (FdV) - Programme Bettencourt, Université Paris Descartes, Sorbonne Paris Cité, F-75004 Paris, France [5]
| | - Christian G Specht
- Institut de Biologie de l'Ecole Normale Supérieure (IBENS), Biologie Cellulaire de la Synapse, INSERM U1024, CNRS UMR8197, F-75005 Paris, France
| | - Ignacio Izeddin
- Institut de Biologie de l'Ecole Normale Supérieure (IBENS), Functional Imaging of Transcription, INSERM U1024, CNRS UMR8197, F-75005 Paris, France
| | - Daniela Vorkel
- Max Planck Institute of Molecular Cell Biology and Genetics, 01307 Dresden, Germany
| | - Jean-Marc Verbavatz
- 1] CNRS, UMR 7592, Institut Jacques Monod, F-75013 Paris, France [2] Max Planck Institute of Molecular Cell Biology and Genetics, 01307 Dresden, Germany
| | - Xavier Darzacq
- Institut de Biologie de l'Ecole Normale Supérieure (IBENS), Functional Imaging of Transcription, INSERM U1024, CNRS UMR8197, F-75005 Paris, France
| | - Antoine Triller
- Institut de Biologie de l'Ecole Normale Supérieure (IBENS), Biologie Cellulaire de la Synapse, INSERM U1024, CNRS UMR8197, F-75005 Paris, France
| | - Karl H Pfenninger
- Linda Crnic Institute for Down Syndrome and Department of Pediatrics, University Colorado School of Medicine, Aurora, Colorado 80045, USA
| | - David Tareste
- 1] INSERM, U950, F-75013 Paris, France [2] Université Paris Diderot, Sorbonne Paris Cité, ERL U950, F-75013 Paris, France [3] CNRS, UMR 7592, Institut Jacques Monod, F-75013 Paris, France
| | - Catherine L Jackson
- 1] CNRS, UMR 7592, Institut Jacques Monod, F-75013 Paris, France [2] Membrane Dynamics and Intracellular Trafficking, Institute Jacques Monod, F-75013 Paris, France
| | - Thierry Galli
- 1] INSERM, U950, F-75013 Paris, France [2] Université Paris Diderot, Sorbonne Paris Cité, ERL U950, F-75013 Paris, France [3] CNRS, UMR 7592, Institut Jacques Monod, F-75013 Paris, France
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276
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Bykhovskaia M, Jagota A, Gonzalez A, Vasin A, Littleton JT. Interaction of the complexin accessory helix with the C-terminus of the SNARE complex: molecular-dynamics model of the fusion clamp. Biophys J 2014; 105:679-90. [PMID: 23931316 DOI: 10.1016/j.bpj.2013.06.018] [Citation(s) in RCA: 37] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/13/2013] [Revised: 06/05/2013] [Accepted: 06/14/2013] [Indexed: 11/25/2022] Open
Abstract
SNARE complexes form between the synaptic vesicle protein synaptobrevin and the plasma membrane proteins syntaxin and SNAP25 to drive membrane fusion. A cytosolic protein, complexin (Cpx), binds to the SNARE bundle, and its accessory helix (AH) functions to clamp synaptic vesicle fusion. We performed molecular-dynamics simulations of the SNARE/Cpx complex and discovered that at equilibrium the Cpx AH forms tight links with both synaptobrevin and SNAP25. To simulate the effect of electrostatic repulsion between vesicle and membrane on the SNARE complex, we calculated the electrostatic force and performed simulations with an external force applied to synaptobrevin. We found that the partially unzipped state of the SNARE bundle can be stabilized by interactions with the Cpx AH, suggesting a simple mechanistic explanation for the role of Cpx in fusion clamping. To test this model, we performed experimental and computational characterizations of the syx(3-69)Drosophila mutant, which has a point mutation in syntaxin that causes increased spontaneous fusion. We found that this mutation disrupts the interaction of the Cpx AH with synaptobrevin, partially imitating the cpx null phenotype. Our results support a model in which the Cpx AH clamps fusion by binding to the synaptobrevin C-terminus, thus preventing full SNARE zippering.
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Affiliation(s)
- Maria Bykhovskaia
- Neuroscience Department, Universidad Central del Caribe, Bayamon, Puerto Rico.
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277
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Koirala D, Punnoose JA, Shrestha P, Mao H. Yoctoliter thermometry for single-molecule investigations: a generic bead-on-a-tip temperature-control module. Angew Chem Int Ed Engl 2014; 53:3470-4. [PMID: 24596309 DOI: 10.1002/anie.201310172] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/22/2013] [Revised: 01/06/2014] [Indexed: 11/10/2022]
Abstract
A new temperature-jump (T-jump) strategy avoids photo-damage of individual molecules by focusing a low-intensity laser on a black microparticle at the tip of a capillary. The black particle produces an efficient photothermal effect that enables a wide selection of lasers with powers in the milliwatt range to achieve a T-jump of 65 °C within milliseconds. To measure the temperature in situ in single-molecule experiments, the temperature-dependent mechanical unfolding of a single DNA hairpin molecule was monitored by optical tweezers within a yoctoliter volume. Using this bead-on-a-tip module and the robust single-molecule thermometer, full thermodynamic landscapes for the unfolding of this DNA hairpin were retrieved. These approaches are likely to provide powerful tools for the microanalytical investigation of dynamic processes with a combination of T-jump and single-molecule techniques.
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Affiliation(s)
- Deepak Koirala
- Department of Chemistry and Biochemistry, Kent State University, Kent, OH 44242 (USA)
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278
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Koirala D, Punnoose JA, Shrestha P, Mao H. Yoctoliter Thermometry for Single-Molecule Investigations: A Generic Bead-on-a-Tip Temperature-Control Module. Angew Chem Int Ed Engl 2014. [DOI: 10.1002/ange.201310172] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
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279
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Abstract
Synaptic vesicle recycling is one of the best-studied cellular pathways. Many of the proteins involved are known, and their interactions are becoming increasingly clear. However, as for many other pathways, it is still difficult to understand synaptic vesicle recycling as a whole. While it is generally possible to point out how synaptic reactions take place, it is not always easy to understand what triggers or controls them. Also, it is often difficult to understand how the availability of the reaction partners is controlled: how the reaction partners manage to find each other in the right place, at the right time. I present here an overview of synaptic vesicle recycling, discussing the mechanisms that trigger different reactions, and those that ensure the availability of reaction partners. A central argument is that synaptic vesicles bind soluble cofactor proteins, with low affinity, and thus control their availability in the synapse, forming a buffer for cofactor proteins. The availability of cofactor proteins, in turn, regulates the different synaptic reactions. Similar mechanisms, in which one of the reaction partners buffers another, may apply to many other processes, from the biogenesis to the degradation of the synaptic vesicle.
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Affiliation(s)
- Silvio O Rizzoli
- Department of Neuro- and Sensory Physiology, University Medical Center Göttingen European Neuroscience Institute, Göttingen, Germany
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280
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Li F, Kümmel D, Coleman J, Reinisch KM, Rothman JE, Pincet F. A half-zippered SNARE complex represents a functional intermediate in membrane fusion. J Am Chem Soc 2014; 136:3456-64. [PMID: 24533674 PMCID: PMC3985920 DOI: 10.1021/ja410690m] [Citation(s) in RCA: 53] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/11/2022]
Abstract
![]()
SNARE
(soluble N-ethylmaleimide-sensitive factor
attachment protein receptor) proteins mediate fusion by pulling biological
membranes together via a zippering mechanism. Recent biophysical studies
have shown that t- and v-SNAREs can assemble in multiple stages from
the N-termini toward the C-termini. Here we show that functionally,
membrane fusion requires a sequential, two-step folding pathway and
assign specific and distinct functions for each step. First, the N-terminal
domain (NTD) of the v-SNARE docks to the t-SNARE, which leads to a
conformational rearrangement into an activated half-zippered SNARE
complex. This partially assembled SNARE complex locks the C-terminal
(CTD) portion of the t-SNARE into the same structure as in the postfusion
4-helix bundle, thereby creating the binding site for the CTD of the
v-SNARE and enabling fusion. Then zippering of the remaining CTD,
the membrane-proximal linker (LD), and transmembrane (TMD) domains
is required and sufficient to trigger fusion. This intrinsic property
of the SNAREs fits well with the action of physiologically vital regulators
such as complexin. We also report that NTD assembly is the rate-limiting
step. Our findings provide a refined framework for delineating the
molecular mechanism of SNARE-mediated membrane fusion and action of
regulatory proteins.
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Affiliation(s)
- Feng Li
- Department of Cell Biology, School of Medicine, Yale University , 333 Cedar Street, New Haven, Connecticut 06520, United States
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281
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Parisotto D, Pfau M, Scheutzow A, Wild K, Mayer MP, Malsam J, Sinning I, Söllner TH. An extended helical conformation in domain 3a of Munc18-1 provides a template for SNARE (soluble N-ethylmaleimide-sensitive factor attachment protein receptor) complex assembly. J Biol Chem 2014; 289:9639-50. [PMID: 24532794 DOI: 10.1074/jbc.m113.514273] [Citation(s) in RCA: 94] [Impact Index Per Article: 9.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/21/2022] Open
Abstract
Munc18-1, a SEC1/Munc18 protein and key regulatory protein in synaptic transmission, can either promote or inhibit SNARE complex assembly. Although the binary inhibitory interaction between Munc18-1 and closed syntaxin 1 is well described, the mechanism of how Munc18-1 stimulates membrane fusion remains elusive. Using a reconstituted assay that resolves vesicle docking, priming, clamping, and fusion during synaptic exocytosis, we show that helix 12 in domain 3a of Munc18-1 stimulates SNAREpin assembly and membrane fusion. A single point mutation (L348R) within helix 12 selectively abolishes VAMP2 binding and the stimulatory function of Munc18-1 in membrane fusion. In contrast, targeting a natural switch site (P335A) at the start of helix 12, which can result in an extended α-helical conformation, further accelerates lipid-mixing. Together with structural modeling, the data suggest that helix 12 provides a folding template for VAMP2, accelerating SNAREpin assembly and membrane fusion. Analogous SEC1/Munc18-SNARE interactions at other transport steps may provide a general mechanism to drive lipid bilayer merger. At the neuronal synapse, Munc18-1 may convert docked synaptic vesicles into a readily releasable pool.
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Affiliation(s)
- Daniel Parisotto
- From the Heidelberg University Biochemistry Center (BZH), Im Neuenheimer Feld 328, 69120 Heidelberg, Germany and
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282
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Zheng W. All-atom and coarse-grained simulations of the forced unfolding pathways of the SNARE complex. Proteins 2014; 82:1376-86. [DOI: 10.1002/prot.24505] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/16/2013] [Revised: 12/11/2013] [Accepted: 01/06/2014] [Indexed: 01/03/2023]
Affiliation(s)
- Wenjun Zheng
- Department of Physics; University at Buffalo, State University of New York; New York
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283
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Bharat TAM, Malsam J, Hagen WJH, Scheutzow A, Söllner TH, Briggs JAG. SNARE and regulatory proteins induce local membrane protrusions to prime docked vesicles for fast calcium-triggered fusion. EMBO Rep 2014; 15:308-14. [PMID: 24493260 DOI: 10.1002/embr.201337807] [Citation(s) in RCA: 41] [Impact Index Per Article: 4.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/27/2022] Open
Abstract
Synaptic vesicles fuse with the plasma membrane in response to Ca(2+) influx, thereby releasing neurotransmitters into the synaptic cleft. The protein machinery that mediates this process, consisting of soluble N-ethylmaleimide-sensitive factor attachment protein receptors (SNAREs) and regulatory proteins, is well known, but the mechanisms by which these proteins prime synaptic membranes for fusion are debated. In this study, we applied large-scale, automated cryo-electron tomography to image an in vitro system that reconstitutes synaptic fusion. Our findings suggest that upon docking and priming of vesicles for fast Ca(2)(+)-triggered fusion, SNARE proteins act in concert with regulatory proteins to induce a local protrusion in the plasma membrane, directed towards the primed vesicle. The SNAREs and regulatory proteins thereby stabilize the membrane in a high-energy state from which the activation energy for fusion is profoundly reduced, allowing synchronous and instantaneous fusion upon release of the complexin clamp.
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Affiliation(s)
- Tanmay A M Bharat
- Structural and Computational Biology Unit, European Molecular Biology Laboratory, Heidelberg, Germany
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284
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Arsenault J, Cuijpers SAG, Ferrari E, Niranjan D, Rust A, Leese C, O'Brien JA, Binz T, Davletov B. Botulinum protease-cleaved SNARE fragments induce cytotoxicity in neuroblastoma cells. J Neurochem 2014; 129:781-91. [PMID: 24372287 PMCID: PMC4063335 DOI: 10.1111/jnc.12645] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/20/2013] [Revised: 12/19/2013] [Accepted: 12/20/2013] [Indexed: 12/11/2022]
Abstract
Soluble N-ethylmaleimide sensitive factor attachment protein receptors (SNAREs) are crucial for exocytosis, trafficking, and neurite outgrowth, where vesicular SNAREs are directed toward their partner target SNAREs: synaptosomal-associated protein of 25 kDa and syntaxin. SNARE proteins are normally membrane bound, but can be cleaved and released by botulinum neurotoxins. We found that botulinum proteases types C and D can easily be transduced into endocrine cells using DNA-transfection reagents. Following administration of the C and D proteases into normally refractory Neuro2A neuroblastoma cells, the SNARE proteins were cleaved with high efficiency within hours. Remarkably, botulinum protease exposures led to cytotoxicity evidenced by spectrophotometric assays and propidium iodide penetration into the nuclei. Direct delivery of SNARE fragments into the neuroblastoma cells reduced viability similar to botulinum proteases' application. We observed synergistic cytotoxic effects of the botulinum proteases, which may be explained by the release and interaction of soluble SNARE fragments. We show for the first time that previously observed cytotoxicity of botulinum neurotoxins/C in neurons could be achieved in cells of neuroendocrine origin with implications for medical uses of botulinum preparations.
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285
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The synaptotagmin 1 linker may function as an electrostatic zipper that opens for docking but closes for fusion pore opening. Biochem J 2013; 456:25-33. [PMID: 24001110 DOI: 10.1042/bj20130949] [Citation(s) in RCA: 24] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/18/2022]
Abstract
Syt1 (synaptotagmin 1), a major Ca2+ sensor for fast neurotransmitter release, contains tandem Ca2+-binding C2 domains (C2AB), a single transmembrane α-helix and a highly charged 60-residue-long linker in between. Using single-vesicle-docking and content-mixing assays we found that the linker region of Syt1 is essential for its two signature functions: Ca2+-independent vesicle docking and Ca2+-dependent fusion pore opening. The linker contains the basic-amino-acid-rich N-terminal region and the acidic-amino-acid-rich C-terminal region. When the charge segregation was disrupted, fusion pore opening was slowed, whereas docking was unchanged. Intramolecular disulfide cross-linking between N- and C-terminal regions of the linker or deletion of 40 residues from the linker reduced docking while enhancing pore opening, although the changes were subtle. EPR analysis showed Ca2+-induced line broadening reflecting a conformational change in the linker region. Thus the results of the present study suggest that the electrostatically bipartite linker region may extend for docking and fold to facilitate pore opening.
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286
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Halimani M, Pattu V, Marshall MR, Chang HF, Matti U, Jung M, Becherer U, Krause E, Hoth M, Schwarz EC, Rettig J. Syntaxin11 serves as a t‐
SNARE
for the fusion of lytic granules in human cytotoxic
T
lymphocytes. Eur J Immunol 2013; 44:573-84. [DOI: 10.1002/eji.201344011] [Citation(s) in RCA: 30] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/20/2013] [Revised: 10/07/2013] [Accepted: 11/06/2013] [Indexed: 11/11/2022]
Affiliation(s)
| | - Varsha Pattu
- Institut für PhysiologieUniversität des Saarlandes Homburg/Saar Germany
| | - Misty R. Marshall
- Institut für PhysiologieUniversität des Saarlandes Homburg/Saar Germany
| | - Hsin Fang Chang
- Institut für PhysiologieUniversität des Saarlandes Homburg/Saar Germany
| | - Ulf Matti
- Institut für PhysiologieUniversität des Saarlandes Homburg/Saar Germany
| | - Martin Jung
- Institut für BiochemieUniversität des Saarlandes Homburg/Saar Germany
| | - Ute Becherer
- Institut für PhysiologieUniversität des Saarlandes Homburg/Saar Germany
| | - Elmar Krause
- Institut für PhysiologieUniversität des Saarlandes Homburg/Saar Germany
| | - Markus Hoth
- Institut für BiophysikUniversität des Saarlandes Homburg/Saar Germany
| | - Eva C. Schwarz
- Institut für BiophysikUniversität des Saarlandes Homburg/Saar Germany
| | - Jens Rettig
- Institut für PhysiologieUniversität des Saarlandes Homburg/Saar Germany
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287
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Zhong MC, Gong L, Zhou JH, Wang ZQ, Li YM. Optical trapping of red blood cells in living animals with a water immersion objective. OPTICS LETTERS 2013; 38:5134-5137. [PMID: 24281528 DOI: 10.1364/ol.38.005134] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/02/2023]
Abstract
We demonstrate optical trapping of red blood cells (RBCs) in living animals by using a water immersion objective. First, the cells within biological tissue are mimicked by the particles immersed in aqueous solutions of glycerol. The optical forces depending on trapping depth are investigated when a parallel laser beam enters the water immersion objective. The results show that the optical forces vary with trapping depth, and the optimal trapping depth in aqueous solutions of glycerol (n=1.39) is 50 μm. Second, the optimal trapping depth in aqueous solutions of glycerol can be changed by altering the actual tube length of the water immersion objective. Finally, we achieved optical trapping and manipulation of RBCs in living mice.
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288
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Kiessling V, Ahmed S, Domanska MK, Holt MG, Jahn R, Tamm LK. Rapid fusion of synaptic vesicles with reconstituted target SNARE membranes. Biophys J 2013; 104:1950-8. [PMID: 23663838 DOI: 10.1016/j.bpj.2013.03.038] [Citation(s) in RCA: 35] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/25/2013] [Revised: 03/19/2013] [Accepted: 03/22/2013] [Indexed: 12/29/2022] Open
Abstract
Neurotransmitter release at neuronal synapses occurs on a timescale of 1 ms or less. Reconstitution of vesicle fusion from purified synaptic proteins and lipids has played a major role in elucidating the synaptic exocytotic fusion machinery with ever increasing detail. However, one limitation of most reconstitution approaches has been the relatively slow rate of fusion that can be produced in these systems. In a related study, a notable exception is an approach measuring fusion of single reconstituted vesicles bearing the vesicle fusion protein synaptobrevin with supported planar membranes harboring the presynaptic plasma membrane proteins syntaxin and SNAP-25. Fusion times of ∼20 ms were achieved in this system. Despite this advance, an important question with reconstituted systems is how well they mimic physiological systems they are supposed to reproduce. In this work, we demonstrate that purified synaptic vesicles from rat brain fuse with acceptor-SNARE containing planar bilayers equally fast as equivalent reconstituted vesicles and that their fusion efficiency is increased by divalent cations. Calcium boosts fusion through a combined general electrostatic and synaptotagmin-specific mechanism.
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Affiliation(s)
- Volker Kiessling
- Center for Membrane Biology and Department of Molecular Physiology and Biological Physics, University of Virginia, Charlottesville, Virginia, USA
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289
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Prefusion structure of syntaxin-1A suggests pathway for folding into neuronal trans-SNARE complex fusion intermediate. Proc Natl Acad Sci U S A 2013; 110:19384-9. [PMID: 24218570 DOI: 10.1073/pnas.1314699110] [Citation(s) in RCA: 48] [Impact Index Per Article: 4.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
The assembly of the three neuronal soluble N-ethylmaleimide-sensitive factor attachment protein (SNAP) receptor (SNARE) proteins synaptobrevin 2, syntaxin-1A, and SNAP-25 is the key step that leads to exocytotic fusion of synaptic vesicles. In the fully assembled SNARE complex, these three proteins form a coiled-coil four-helix bundle structure by interaction of their respective SNARE motifs. Although biochemical and mutational analyses strongly suggest that the heptad-repeat SNARE motifs zipper into the final structure, little is known about the prefusion state of individual membrane-bound SNAREs and how they change conformation from the unzippered prefusion to the zippered postfusion state in a membrane environment. We have solved the solution NMR structure of micelle-bound syntaxin-1A in its prefusion conformation. In addition to the transmembrane helix, the SNARE motif consists of two well-ordered, membrane-bound helices separated by the "0-layer" residue Gln226. This unexpected structural order of the N- and C-terminal halves of the uncomplexed SNARE motif suggests the formation of partially zippered SNARE complex intermediates, with the 0-layer serving as a proofreading site for correct SNARE assembly. Interferometric fluorescence measurements in lipid bilayers confirm that the open SNARE motif helices of syntaxin interact with lipid bilayers and that association with the other target-membrane SNARE SNAP-25 lifts the SNARE motif off the membrane as a critical prerequisite for SNARE complex assembly and membrane fusion.
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290
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Mechanical unzipping and rezipping of a single SNARE complex reveals hysteresis as a force-generating mechanism. Nat Commun 2013; 4:1705. [PMID: 23591872 PMCID: PMC3644077 DOI: 10.1038/ncomms2692] [Citation(s) in RCA: 88] [Impact Index Per Article: 8.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/06/2012] [Accepted: 03/01/2013] [Indexed: 01/15/2023] Open
Abstract
Formation of the soluble N-ethylmaleimide-sensitive factor attachment protein receptor (SNARE) complex provides mechanical thrust for membrane fusion, but its molecular mechanism is still unclear. Here using magnetic tweezers, we observe mechanical responses of a single neuronal SNARE complex under constant pulling force. Single SNARE complexes may be unzipped with 34 pN force. When rezipping is induced by lowering the force to 11 pN, only a partially assembled state results, with the C-terminal half of the SNARE complex remaining disassembled. Reassembly of the C-terminal half occurs only when the force is further lowered below 11 pN. Thus, mechanical hysteresis, characterized by the unzipping and rezipping cycle of a single SNARE complex, produces the partially assembled state. In this metastable state, unzipping toward the N-terminus is suppressed while zippering toward the C-terminus is initiated as a steep function of force. This ensures the directionality of SNARE-complex formation, making the SNARE complex a robust force-generating machine. Interactions between (SNARE) proteins on vesicle and target membranes provide the force necessary to drive membrane fusion. By applying piconewton forces to single SNARE complexes, the authors identify a partially assembled intermediate state that reveals how force is generated in a consistent direction.
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291
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Ultrafast folding kinetics and cooperativity of villin headpiece in single-molecule force spectroscopy. Proc Natl Acad Sci U S A 2013; 110:18156-61. [PMID: 24145407 DOI: 10.1073/pnas.1311495110] [Citation(s) in RCA: 65] [Impact Index Per Article: 5.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/05/2023] Open
Abstract
In this study we expand the accessible dynamic range of single-molecule force spectroscopy by optical tweezers to the microsecond range by fast sampling. We are able to investigate a single molecule for up to 15 min and with 300-kHz bandwidth as the protein undergoes tens of millions of folding/unfolding transitions. Using equilibrium analysis and autocorrelation analysis of the time traces, the full energetics as well as real-time kinetics of the ultrafast folding of villin headpiece 35 and a stable asparagine 68 alanine/lysine 70 methionine variant can be measured directly. We also performed Brownian dynamics simulations of the response of the bead-DNA system to protein-folding fluctuations. All key features of the force-dependent deflection fluctuations could be reproduced: SD, skewness, and autocorrelation function. Our measurements reveal a difference in folding pathway and cooperativity between wild-type and stable variant of headpiece 35. Autocorrelation force spectroscopy pushes the time resolution of single-molecule force spectroscopy to ∼10 µs thus approaching the timescales accessible for all atom molecular dynamics simulations.
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292
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Swietlicki EA, Bala S, Lu J, Shaker A, Kularatna G, Levin MS, Rubin DC. Epimorphin deletion inhibits polyposis in the Apcmin/+ mouse model of colon carcinogenesis via decreased myofibroblast HGF secretion. Am J Physiol Gastrointest Liver Physiol 2013; 305:G564-72. [PMID: 23886856 PMCID: PMC3798733 DOI: 10.1152/ajpgi.00486.2012] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 01/31/2023]
Abstract
Interactions between the epithelium and surrounding mesenchyme/stroma play an important role in normal gut morphogenesis, the epithelial response to injury, and epithelial carcinogenesis. The tumor microenvironment, composed of stromal cells including myofibroblasts and immune cells, regulates tumor growth and the cancer stem cell niche. Deletion of epimorphin (Epim), a syntaxin family member expressed in myofibroblasts and macrophages, results in partial protection from colitis and from inflammation-induced colon cancer in mice. We sought to determine whether epimorphin deletion protects from polyposis in the Apcmin/+ mouse model of intestinal carcinogenesis. Epim-/- mice were crossed to Apcmin/+ mice; Apcmin/+ and Apcmin/+/Epim-/- mice were killed at 3 mo of age. Polyp numbers and sizes were quantified in small intestine and colon, and gene expression analyses for pathways relevant to epithelial carcinogenesis were performed. Primary myofibroblast cultures were isolated, and expression and secretion of selected growth factors from Apcmin/+ and Apcmin/+/Epim-/- myofibroblasts were examined by ELISA. Small bowel polyposis was significantly inhibited in Apcmin/+/Epim-/- compared with Apcmin/+ mice. Apcmin/+/Epim-/- compared with Apcmin/+ polyps and adjacent uninvolved intestinal mucosa had increased transforming growth factor-β (TGF-β) expression and signaling with increased P-Smad2/3 expression. Myofibroblasts isolated from Apcmin/+/Epim-/- vs. Apcmin/+ mice had markedly decreased hepatocyte growth factor (HGF) expression and secretion. We concluded that Epim deletion inhibits polyposis in Apcmin/+ mice, associated with increased mucosal TGF-β signaling and decreased myofibroblast HGF expression and secretion. Our data suggest that Epim deletion reduces tumorigenicity of the stromal microenvironment.
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Affiliation(s)
| | - Shashi Bala
- Division of Gastroenterology, Departments of 1Medicine, and
| | - Jianyun Lu
- Division of Gastroenterology, Departments of 1Medicine, and
| | - Anisa Shaker
- Division of Gastroenterology, Departments of 1Medicine, and
| | | | - Marc S. Levin
- Division of Gastroenterology, Departments of 1Medicine, and ,3Department of Medicine, Veteran's Administration St. Louis Healthcare System, St. Louis, Missouri
| | - Deborah C. Rubin
- Division of Gastroenterology, Departments of 1Medicine, and ,2Developmental Biology, Washington University School of Medicine;
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293
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Heidarsson P, Otazo M, Bellucci L, Mossa A, Imparato A, Paci E, Corni S, Di Felice R, Kragelund B, Cecconi C. Single-Molecule Folding Mechanism of an EF-Hand Neuronal Calcium Sensor. Structure 2013; 21:1812-21. [DOI: 10.1016/j.str.2013.07.022] [Citation(s) in RCA: 22] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/07/2013] [Revised: 07/13/2013] [Accepted: 07/28/2013] [Indexed: 11/28/2022]
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294
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Zhang X, Ma L, Zhang Y. High-resolution optical tweezers for single-molecule manipulation. THE YALE JOURNAL OF BIOLOGY AND MEDICINE 2013; 86:367-83. [PMID: 24058311 PMCID: PMC3767221] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Indexed: 11/19/2022]
Abstract
Forces hold everything together and determine its structure and dynamics. In particular, tiny forces of 1-100 piconewtons govern the structures and dynamics of biomacromolecules. These forces enable folding, assembly, conformational fluctuations, or directional movements of biomacromolecules over sub-nanometer to micron distances. Optical tweezers have become a revolutionary tool to probe the forces, structures, and dynamics associated with biomacromolecules at a single-molecule level with unprecedented resolution. In this review, we introduce the basic principles of optical tweezers and their latest applications in studies of protein folding and molecular motors. We describe the folding dynamics of two strong coiled coil proteins, the GCN4-derived protein pIL and the SNARE complex. Both complexes show multiple folding intermediates and pathways. ATP-dependent chromatin remodeling complexes translocate DNA to remodel chromatin structures. The detailed DNA translocation properties of such molecular motors have recently been characterized by optical tweezers, which are reviewed here. Finally, several future developments and applications of optical tweezers are discussed. These past and future applications demonstrate the unique advantages of high-resolution optical tweezers in quantitatively characterizing complex multi-scale dynamics of biomacromolecules.
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Affiliation(s)
- Xinming Zhang
- Department of Cell Biology, Yale School of Medicine, New Haven,
Connecticut
| | - Lu Ma
- Department of Cell Biology, Yale School of Medicine, New Haven,
Connecticut
| | - Yongli Zhang
- Department of Cell Biology, Yale School of Medicine, New Haven,
Connecticut
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295
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Comparative studies of Munc18c and Munc18-1 reveal conserved and divergent mechanisms of Sec1/Munc18 proteins. Proc Natl Acad Sci U S A 2013; 110:E3271-80. [PMID: 23918365 DOI: 10.1073/pnas.1311232110] [Citation(s) in RCA: 64] [Impact Index Per Article: 5.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/23/2022] Open
Abstract
Sec1/Munc18 (SM) family proteins are essential for every vesicle fusion pathway. The best-characterized SM protein is the synaptic factor Munc18-1, but it remains unclear whether its functions represent conserved mechanisms of SM proteins or specialized activities in neurotransmitter release. To address this question, we dissected Munc18c, a functionally distinct SM protein involved in nonsynaptic exocytic pathways. We discovered that Munc18c binds to the trans-SNARE (soluble N-ethylmaleimide-sensitive factor attachment protein receptor) complex and strongly accelerates the fusion rate. Further analysis suggests that Munc18c recognizes both vesicle-rooted SNARE and target membrane-associated SNAREs, and promotes trans-SNARE zippering at the postdocking stage of the fusion reaction. The stimulation of fusion by Munc18c is specific to its cognate SNARE isoforms. Because Munc18-1 regulates fusion in a similar manner, we conclude that one conserved function of SM proteins is to bind their cognate trans-SNARE complexes and accelerate fusion kinetics. Munc18c also binds syntaxin-4 monomer but does not block target membrane-associated SNARE assembly, in agreement with our observation that six- to eightfold increases in Munc18c expression do not inhibit insulin-stimulated glucose uptake in adipocytes. Thus, the inhibitory "closed" syntaxin binding mode demonstrated for Munc18-1 is not conserved in Munc18c. Unexpectedly, we found that Munc18c recognizes the N-terminal region of the vesicle-rooted SNARE, whereas Munc18-1 requires the C-terminal sequences, suggesting that the architecture of the SNARE/SM complex likely differs across fusion pathways. Together, these comparative studies of two distinct SM proteins reveal conserved as well as divergent mechanisms of SM family proteins in intracellular vesicle fusion.
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296
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Li X, Garrity AG, Xu H. Regulation of membrane trafficking by signalling on endosomal and lysosomal membranes. J Physiol 2013; 591:4389-401. [PMID: 23878375 DOI: 10.1113/jphysiol.2013.258301] [Citation(s) in RCA: 49] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/20/2022] Open
Abstract
Endosomal and lysosomal membrane trafficking requires the coordination of multiple signalling events to control cargo sorting and processing, and endosome maturation. The initiation and termination of signalling events in endosomes and lysosomes is not well understood, but several key regulators have been identified, which include small GTPases, phosphoinositides, and Ca2+. Small GTPases act as master regulators and molecular switches in a GTP-dependent manner, initiating signalling cascades to regulate the direction and specificity of endosomal trafficking. Phosphoinositides are membrane-bound lipids that indicate vesicular identities for recruiting specific cytoplasmic proteins to endosomal membranes, thus allowing specificity of membrane fusion, fission, and cargo sorting to occur within and between specific vesicle compartments. In addition, phosphoinositides regulate the function of membrane proteins such as ion channels and transporters in a compartment-specific manner to mediate transport and signalling. Finally, Ca2+, a locally acting second messenger released from intracellular ion channels, may provide precise spatiotemporal regulation of endosomal signalling and trafficking events. Small GTPase signalling can regulate phosphoinositide conversion during endosome maturation, and electrophysiological studies on isolated endosomes have shown that endosomal and lysosomal Ca2+ channels are directly modulated by endosomal lipids. Thus trafficking and maturation of endosomes and lysosomes can be precisely regulated by dynamic changes in GTPases and membrane lipids, as well as Ca2+ signalling. Importantly, impaired phosphoinositide and Ca2+ signalling can cause endosomal and lysosomal trafficking defects at the cellular level, and a spectrum of lysosome storage diseases.
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Affiliation(s)
- Xinran Li
- H. Xu: University of Michigan, MCDB, 3089 Natural Science Building (Kraus), 830 North University, Ann Arbor, MI 48109, USA.
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297
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Bae W, Bae W, Choi MG, Hyeon C, Shin YK, Yoon TY. Real-time observation of multiple-protein complex formation with single-molecule FRET. J Am Chem Soc 2013; 135:10254-7. [PMID: 23808880 DOI: 10.1021/ja404276g] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/24/2022]
Abstract
Current single-molecule techniques do not permit the real-time observation of multiple proteins interacting closely with each other. We here report an approach enabling us to determine the single-molecule fluorescence resonance energy transfer (FRET) kinetics of multiple protein-protein interactions occurring far below the diffraction limit. We observe a strongly cooperative formation of multimeric soluble N-ethylmaleimide-sensitive factor attachment protein receptor (SNARE) complexes, which suggests that formation of the first SNARE complex triggers a cascade of SNARE complex formation.
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Affiliation(s)
| | - Woori Bae
- National Creative Research Initiative Center for Single-Molecule Systems Biology and Department of Physics, KAIST, Daejeon 305-701, South Korea
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298
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Ultrahigh-resolution imaging reveals formation of neuronal SNARE/Munc18 complexes in situ. Proc Natl Acad Sci U S A 2013; 110:E2812-20. [PMID: 23821748 DOI: 10.1073/pnas.1310654110] [Citation(s) in RCA: 85] [Impact Index Per Article: 7.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/26/2022] Open
Abstract
Membrane fusion is mediated by complexes formed by SNAP-receptor (SNARE) and Secretory 1 (Sec1)/mammalian uncoordinated-18 (Munc18)-like (SM) proteins, but it is unclear when and how these complexes assemble. Here we describe an improved two-color fluorescence nanoscopy technique that can achieve effective resolutions of up to 7.5-nm full width at half maximum (3.2-nm localization precision), limited only by stochastic photon emission from single molecules. We use this technique to dissect the spatial relationships between the neuronal SM protein Munc18-1 and SNARE proteins syntaxin-1 and SNAP-25 (25 kDa synaptosome-associated protein). Strikingly, we observed nanoscale clusters consisting of syntaxin-1 and SNAP-25 that contained associated Munc18-1. Rescue experiments with syntaxin-1 mutants revealed that Munc18-1 recruitment to the plasma membrane depends on the Munc18-1 binding to the N-terminal peptide of syntaxin-1. Our results suggest that in a primary neuron, SNARE/SM protein complexes containing syntaxin-1, SNAP-25, and Munc18-1 are preassembled in microdomains on the presynaptic plasma membrane. Our superresolution imaging method provides a framework for investigating interactions between the synaptic vesicle fusion machinery and other subcellular systems in situ.
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299
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Cipriano DJ, Jung J, Vivona S, Fenn TD, Brunger AT, Bryant Z. Processive ATP-driven substrate disassembly by the N-ethylmaleimide-sensitive factor (NSF) molecular machine. J Biol Chem 2013; 288:23436-45. [PMID: 23775070 PMCID: PMC4520572 DOI: 10.1074/jbc.m113.476705] [Citation(s) in RCA: 32] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/04/2023] Open
Abstract
SNARE proteins promote membrane fusion by forming a four-stranded parallel helical bundle that brings the membranes into close proximity. Post-fusion, the complex is disassembled by an AAA+ ATPase called N-ethylmaleimide-sensitive factor (NSF). We present evidence that NSF uses a processive unwinding mechanism to disassemble SNARE proteins. Using a real-time disassembly assay based on fluorescence dequenching, we correlate NSF-driven disassembly rates with the SNARE-activated ATPase activity of NSF. Neuronal SNAREs activate the ATPase rate of NSF by ∼26-fold. One SNARE complex takes an average of ∼5 s to disassemble in a process that consumes ∼50 ATP. Investigations of substrate requirements show that NSF is capable of disassembling a truncated SNARE substrate consisting of only the core SNARE domain, but not an unrelated four-stranded coiled-coil. NSF can also disassemble an engineered double-length SNARE complex, suggesting a processive unwinding mechanism. We further investigated processivity using single-turnover experiments, which show that SNAREs can be unwound in a single encounter with NSF. We propose a processive helicase-like mechanism for NSF in which ∼1 residue is unwound for every hydrolyzed ATP molecule.
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Affiliation(s)
- Daniel J Cipriano
- Department of Molecular and Cellular Physiology, Stanford University, Stanford, California 94305, USA
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300
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Arsenault J, Ferrari E, Niranjan D, Cuijpers SAG, Gu C, Vallis Y, O'Brien J, Davletov B. Stapling of the botulinum type A protease to growth factors and neuropeptides allows selective targeting of neuroendocrine cells. J Neurochem 2013; 126:223-33. [PMID: 23638840 PMCID: PMC3758956 DOI: 10.1111/jnc.12284] [Citation(s) in RCA: 24] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Key Words] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/04/2013] [Revised: 04/16/2013] [Accepted: 04/24/2013] [Indexed: 01/12/2023]
Abstract
Precise cellular targeting of macromolecular cargos has important biotechnological and medical implications. Using a recently established ‘protein stapling’ method, we linked the proteolytic domain of botulinum neurotoxin type A (BoNT/A) to a selection of ligands to target neuroendocrine tumor cells. The botulinum proteolytic domain was chosen because of its well-known potency to block the release of neurotransmitters and hormones. Among nine tested stapled ligands, the epidermal growth factor was able to deliver the botulinum enzyme into pheochromocytoma PC12 and insulinoma Min6 cells; ciliary neurotrophic factor was effective on neuroblastoma SH-SY5Y and Neuro2A cells, whereas corticotropin-releasing hormone was active on pituitary AtT-20 cells and the two neuroblastoma cell lines. In neuronal cultures, the epidermal growth factor- and ciliary neurotrophic factor-directed botulinum enzyme targeted distinct subsets of neurons whereas the whole native neurotoxin targeted the cortical neurons indiscriminately. At nanomolar concentrations, the retargeted botulinum molecules were able to inhibit stimulated release of hormones from tested cell lines suggesting their application for treatments of neuroendocrine disorders.
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Affiliation(s)
- Jason Arsenault
- MRC Laboratory of Molecular Biology, Neurobiology, Cambridge, UK
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