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Crystal structure of a SNARE complex involved in synaptic exocytosis at 2.4 Å resolution
Abstract
The evolutionarily conserved SNARE proteins and their complexes are involved in the fusion of vesicles with their target membranes; however, the overall organization and structural details of these complexes are unknown. Here we report the X-ray crystal structure at 2.4 A resolution of a core synaptic fusion complex containing syntaxin-1 A, synaptobrevin-II and SNAP-25B. The structure reveals a highly twisted and parallel four-helix bundle that differs from the bundles described for the haemagglutinin and HIV/SIV gp41 membrane-fusion proteins. Conserved leucine-zipper-like layers are found at the centre of the synaptic fusion complex. Embedded within these leucine-zipper layers is an ionic layer consisting of an arginine and three glutamine residues contributed from each of the four alpha-helices. These residues are highly conserved across the entire SNARE family. The regions flanking the leucine-zipper-like layers contain a hydrophobic core similar to that of more general four-helix-bundle proteins. The surface of the synaptic fusion complex is highly grooved and possesses distinct hydrophilic, hydrophobic and charged regions. These characteristics may be important for membrane fusion and for the binding of regulatory factors affecting neurotransmission.
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“Indeed modeling the four SNARE proteins (Ufe1, Use1, Sec20, and Sec22) that are known to mediate the fusion between Golgi-derived retrograde transport vesicles with ER (87), together resulted in a complex that resembles a typical SNARE complex (84) (fig. S26B, C).”
From Computed structures of core eukaryotic protein complexes (2021) · cites this paper as [84]
In the citing paper
“Membrane fusion requires the formation of a 4-helix bundle (called the SNARE complex) between the vesicle SNARE and the target membrane SNAREs (84,85).”
From Computed structures of core eukaryotic protein complexes (2021) · cites this paper as [84]
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“The dynamic asymmetry implied by our results with lipid anchors should not be surprising since the SNAREpin is not a symmetrical structure relative to the membrane plane ( Sutton et al., 1998 ).”
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“Proteins involved in the exo/endocytic cycle include the - and -SNAPs (53), NSF, and munc-18 among others.”
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Self-citationThe exocyst defrocked, a framework of rods revealed
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“…1 | Topology of the SNARE complex consisting of synaptobrevin (in blue), syntaxin-1A (in red), and two SNAP-25 (sn1 and sn2, both in green) proteins (PDB:1SFC, Sutton et al., 1998). stretch containing 60–70 amino acids termed as SNARE motif (Fasshauer et al., 1998; Kloepper et al., 2007).”
BackgroundEffects of linker sequences on vesicle fusion mediated by lipid-anchored DNA oligonucleotides
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“Electron paramagnetic resonance (EPR) and X-ray crystallography showed that the SNARE complex consists of a bundle of four parallel a-helices formed by the four SNARE motifs of synaptobrevin, syntaxin and SNAP-25 [10, 11 ] (Box 1). Whereas models of SNARE-mediated membrane fusion envisaged that the transmembrane (TM)…”
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Core structure of the envelope glycoprotein GP2 from Ebola virus at 1.9-Å resolution
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“Together these proteins assemble into a four-helix However, mutants that affect SNARE proteins also disbundle (Sutton et al., 1998) that is sufficient to drive rupt evoked release (Yoshihara et al., 1999; Schulze et vesicle fusion in in vitro reconstitution experiments (We- al., 1995), suggesting…”
BackgroundMolecular architecture of intermediate filaments
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“Such a structure would resemble the fourstranded SNARE complex that has been studied by X-ray crystallography.((44)) We note that, like IFs, the SNARE complex exhibits significant stability as well as dynamic association– dissociation capability, which are both essential for its function during membrane fusion.”
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“Controls were performed in the presence of excess soluble synaptobrevin (1-96) showing all observed liposome interactions were SNARE-mediated, however, they are not depicted in the figures for clarity.”
InfluentialSelf-citationOsteoclasts and giant cells: macrophage–macrophage fusion mechanism
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“Spontaneous assembly of the SNARE proteins into a ternary complex is followed by the fusion of the vesicle with its target membrane, and release of neurotransmitter into the synaptic cleft (Sutton et al. 1998).”
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“…effectively reduced the stability of ternary SNARE complexes than /A (Hayashi et al., 1994), an effect attributable to only three of the nine residues removed by /A being involved in coiled-coil formation, whereas all of the extra 17 residues removed by BoNT/E are required (Sutton et al., 1998).”
BackgroundSyntaxin-17 delivers PINK1/parkin-dependent mitochondrial vesicles to the endolysosomal system
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Fusion of Cells by Flipped SNAREs
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“Similar mechanisms may be used by cellular proteins that mediate intracellular membrane fusion events (Poirier et al. 1998; Sutton et al. 1998).”
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“The structure of the central 0-layer is shown in detail on the top left (Sutton et al., 1998).”
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Ca2+-dependent synaptotagmin binding to SNAP-25 is essential for Ca2+-triggered exocytosis.
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“…ceb promotes stimulus–secretion coupling was unexpected, considering that this protein is virtually unde- tectable in neurons, but it is in line with the high degree of sequence homology to sybII within the SNARE domain, which mediates the interaction with other SNARE partners (Sutton et al, 1998).”
BackgroundThe C Terminus of SNAP25 Is Essential for Ca2+-dependent Binding of Synaptotagmin to SNARE Complexes
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“The interacting surface of α SNAP has two extruding positively charged residues (K122, K163) close to the central ionic layer (zero layer) 3, 40 of the SNARE complex, and another two close to the C-terminal region of α SNAP (K203, R239) (Fig.”
Molecular Mechanisms Underlying Neurotransmitter Release
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Self-citationSNAREing immunity: the role of SNAREs in the immune system
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Molecular Mechanisms of Synaptic Vesicle Priming by Munc13 and Munc18
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“…protein 25); together, they form a trans ternary (syntaxin-1/ SNAP-25/synaptobrevin-2) SNARE complex, bringing the synaptic vesicle and plasma membranes into close juxtaposition and ultimately providing the energy for membrane fusion (Sutton et al., 1998; Weber et al., 1998).”
InfluentialHemifusion in SNARE-mediated membrane fusion
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Pathways for Cytokine Secretion
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LTP Requires a Unique Postsynaptic SNARE Fusion Machinery
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Ascospore Formation in the YeastSaccharomyces cerevisiae
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“SNARE complexes are based on the formation of a four-helix bundle between different subunits of the hetero-oligomer (162).”
BackgroundChaperoning SNARE assembly and disassembly
Baker, R. W., & Hughson, F. M. (2016) · Nature Reviews Molecular Cell Biology · doi:10.1038/nrm.2016.65 · Cited by 231
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“What is the role of granular acidification in granule priming? Possibly, low granular pH promotes exocytosis by inducing conformational changes in SNARE proteins, rendering them more fusogenic (41).”
BackgroundSNAREs and SNARE regulators in membrane fusion and exocytosis
Gerst, J. (1999) · Cellular and Molecular Life Sciences (CMLS) · doi:10.1007/s000180050328 · Cited by 245
CSPα promotes SNARE-complex assembly by chaperoning SNAP-25 during synaptic activity
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Synaptotagmin I, a Ca2+ sensor for neurotransmitter release
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Multiple intermediates in SNARE-induced membrane fusion
Yoon, T., Okumuş, B., Zhang, F., Shin, Y.-K., & Ha, T. (2006) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0606032103 · Cited by 223
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“The core of the SNARE complex is a bundle of four helices: three from the t-SNARE and one from the v-SNARE (Fasshauer et al., 1998; Poirier et al., 1998b; Sutton et al., 1998).”
BackgroundMethodInfluentialA Transient N-terminal Interaction of SNAP-25 and Syntaxin Nucleates SNARE Assembly
Fasshauer, D., & Margittai, M. (2004) · Journal of Biological Chemistry · doi:10.1074/jbc.m312064200 · Cited by 219
Self-citationPaumet, F., Mao, J. L., Martin, S., Galli, T., David, B., Blank, U., & Roa, M. (2000) · The Journal of Immunology · doi:10.4049/jimmunol.164.11.5850 · Cited by 217
SV2 modulates the size of the readily releasable pool of secretory vesicles
Xu, T., & Bajjalieh, S. M. (2001) · Nature Cell Biology · doi:10.1038/35087000 · Cited by 212
Yeast Homotypic Vacuole Fusion: A Window on Organelle Trafficking Mechanisms
Wickner, W. T., & Haas, A. (2000) · Annual Review of Biochemistry · doi:10.1146/annurev.biochem.69.1.247 · Cited by 215
E. coli Hemolysin E (HlyE, ClyA, SheA)
Wallace, A. J., Stillman, T. J., Atkins, A., et al. (2000) · Cell · doi:10.1016/s0092-8674(00)81564-0 · Cited by 214
“…in this case the long aliphatic part of the side chain would form part(Wilson et al., 1981) to mammalian SNARE proteins (Fer- nandez et al., 1998; Sutton et al., 1998), and a variety of the hydrophobic surface of the b tongue, while the guanidinyl end group could reach to the hydrophilicof…”
Mechanism of neurotransmitter release coming into focus
Rizo, J. (2018) · Protein Science · doi:10.1002/pro.3445 · Cited by 210
“causes membrane fusion as continuous helices are formed by the SNARE motifs and TM regions of syntaxin-1 and synaptobrevin, as well as the short linkers between them.(12,27,38) (E).”
BackgroundFusion Pore Dynamics Are Regulated by Synaptotagmin•t-SNARE Interactions
Bai, J., Wang, C., Richards, D. A., Jackson, M. B., & Chapman, E. R. (2004) · Neuron · doi:10.1016/s0896-6273(04)00117-5 · Cited by 207
Membrane traffic in the secretory pathway
Malsam, J., Kreye, S., & Söllner, T. H. (2008) · Cellular and Molecular Life Sciences · doi:10.1007/s00018-008-8352-3 · Cited by 216
Determinants of liposome fusion mediated by synaptic SNARE proteins
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Self-citationCell entry strategy of clostridial neurotoxins
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A Novel Protein LZTFL1 Regulates Ciliary Trafficking of the BBSome and Smoothened
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“The structure of this domain in rat Syntaxin-1A (Stx1A) was previously determined (Figure S2C) [18].”
BackgroundThree SNARE complexes cooperate to mediate membrane fusion
Hua, Y., & Scheller, R. H. (2001) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.131214798 · Cited by 206
Price, A., Seals, D. F., Wickner, W. T., & Ungermann, C. (2000) · The Journal of Cell Biology · doi:10.1083/jcb.148.6.1231 · Cited by 206
“The core of this and other SNARE complexes is undoubtedly composed of a four-helix bundle (Katz et al., 1998; Poirier et al., 1998; Sutton et al., 1998) with a t-SNARE, v-SNARE, and s-SNARE.”
Syntaxin 1A Interacts with Multiple Exocytic Proteins to Regulate Neurotransmitter Release In Vivo
Wu, M. N., Fergestad, T., Lloyd, T. E., He, Y., Broadie, K. S., & Bellen, H. J. (1999) · Neuron · doi:10.1016/s0896-6273(00)80811-9 · Cited by 204
“However, studies in which syntaxin 1A was ex-pull vesicular and target membranes close together to pressed in Xenopus oocytes showed that the protein mediate membrane fusion (Hanson et al., 1997; Lin and functions to inhibit Ca21 channels (Bezprozvanny et al., Scheller, 1997; Sutton et al., 1998).”
How Tlg2p/syntaxin 16 'snares’ Vps45
Dulubova, I., Yamaguchi, T., Gao, Y., Min, S., Huryeva, I., Südhof, T. C., & Rizo, J. (2002) · The EMBO Journal · doi:10.1093/emboj/cdf381 · Cited by 204
Molecular architecture and mechanism of the anaphase-promoting complex
Chang, L., Zhang, Z., Yang, J., McLaughlin, S. H., & Barford, D. (2014) · Nature · doi:10.1038/nature13543 · Cited by 212
Transmission, Development, and Plasticity of Synapses
Harris, K. P., & Littleton, J. T. (2015) · Genetics · doi:10.1534/genetics.115.176529 · Cited by 201
“Vesicle-anchored v-SNAREs (synaptobrevin/VAMP) engage target membrane t-SNAREs (syntaxin and SNAP-25) to zipper together to form a four-helix coiledcoil structure that brings the synaptic vesicle and plasma membranes into close apposition (Figure 2A) (Sutton et al. 1998; Weber et al. 1998).”
BackgroundSNARE complex assembly and disassembly
Yoon, T., & Munson, M. (2018) · Current Biology · doi:10.1016/j.cub.2018.01.005 · Cited by 211
Open Syntaxin Docks Synaptic Vesicles
Hammarlund, M., Palfreyman, M. T., Watanabe, S., Olsen, S. R., & Jørgensen, E. M. (2007) · PLoS Biology · doi:10.1371/journal.pbio.0050198 · Cited by 201
“]. For synaptic vesicle fusion, the vesicular SNARE protein synaptobrevin (also called vesicle-associated membrane protein or VAMP) interacts with the plasma membrane SNARE proteins syntaxin and SNAP-25 to form a four-helix bundle [”
Armstrong, R. T., Kushnir, A. S., & White, J. M. (2000) · The Journal of Cell Biology · doi:10.1083/jcb.151.2.425 · Cited by 199
“Recent structural and biochemical data indicate that the SNARE (soluble N-ethylmaleimide‐sensitive factor [NSF] attachment protein receptor) complexes, key players in intracellular fusion events, share similarities with many viral fusion proteins (Hanson et al., 1997; Hohl et al., 1998; Poirier et al., 1998; Skehel an…”
BackgroundSNAP-25, a Known Presynaptic Protein with Emerging Postsynaptic Functions
Antonucci, F., Corradini, I., Fossati, G., Tomasoni, R., Menna, E., & Matteoli, M. (2016) · Frontiers in Synaptic Neuroscience · doi:10.3389/fnsyn.2016.00007 · Cited by 202
Regulation of releasable vesicle pool sizes by protein kinase A-dependent phosphorylation of SNAP-25
Nagy, G., Reim, K., Matti, U., Brose, N., Binz, T., Rettig, J., Neher, E., & Sørensen, J. B. (2004) · Neuron · doi:10.1016/s0896-6273(04)00038-8 · Cited by 239
Vesicular restriction of synaptobrevin suggests a role for calcium in membrane fusion
Hu, K., Carroll, J., Fedorovich, S. V., Rickman, C., Sukhodub, A., & Davletov, B. A. (2002) · Nature · doi:10.1038/415646a · Cited by 197
Nickel, W., Weber, T., McNew, J. A., Parlati, F., Söllner, T. H., & Rothman, J. E. (1999) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.96.22.12571 · Cited by 197
SNAREs Contribute to the Specificity of Membrane Fusion
Scales, S. J., Chen, Y. A., Yoo, B. Y., Patel, S. M., Doung, Y.-C., & Scheller, R. H. (2000) · Neuron · doi:10.1016/s0896-6273(00)81177-0 · Cited by 197
Metadata
- Authors
- Sutton, R. B., Fasshauer, D., Jahn, R., & Brunger, A. T.
- Affiliations
- Howard Hughes Medical Institute (US)
- Max Planck Society (DE)
- Venue
- Nature
- Published
- 1998-09
- Volume
- 395
- Issue
- 6700
- Pages
- 347-353
- ISSN
- 0028-0836 (ISSN-L)
- 1476-4687
- OpenAlex
- W1822252127
- Semantic Scholar
- f0ea2581b47bed29546d2d208a47cff4312eb1fe
- Cited by
- 2,417
- References
- 52
- Citations by year
- 2026: 25 · 2025: 44 · 2024: 45 · 2023: 55 · 2022: 63 · 2021: 60 · 2020: 59 · 2019: 51 · 2018: 80 · 2017: 70 · 2016: 67 · 2015: 91 · 2014: 93 · 2013: 89 · 2012: 93
- FWCI
- 44.62
- Type
- journal article
- Language
- en
- Open access
- closed
- Licence
- www.springer.com/tdm (tdm)
- Locations
- Nature (publishedVersion)
- PubMed (publishedVersion)
- RePEc: Research Papers in Economics (submittedVersion)
- Topics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Cell Biology › Cellular transport and secretion
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Lipid Membrane Structure and Behavior
- Life Sciences › Neuroscience › Cellular and Molecular Neuroscience › Neuroscience and Neuropharmacology Research
- Keywords
- SNARE complex, synaptic vesicle exocytosis, syntaxin 1A, membrane fusion, four-helix bundle, hydrophobic core, neurotransmitter release, vesicle fusion
- MeSH terms
- Antigens, Surface, Escherichia coli, Exocytosis, Membrane Fusion, Membrane Proteins, Models, Molecular, Nerve Tissue Proteins, Neurotoxins, Protein Binding, Protein Conformation, Recombinant Proteins, Synaptic Vesicles, Crystallography, X-Ray, Vesicular Transport Proteins, Macromolecular Substances, SNARE Proteins, R-SNARE Proteins, Synaptosomal-Associated Protein 25, Syntaxin 1
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