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| | <StructureSection load='5kj8' size='340' side='right'caption='[[5kj8]], [[Resolution|resolution]] 4.10Å' scene=''> | | <StructureSection load='5kj8' size='340' side='right'caption='[[5kj8]], [[Resolution|resolution]] 4.10Å' scene=''> |
| | == Structural highlights == | | == Structural highlights == |
| - | <table><tr><td colspan='2'>[[5kj8]] is a 11 chain structure with sequence from [http://en.wikipedia.org/wiki/Buffalo_rat Buffalo rat]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5KJ8 OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=5KJ8 FirstGlance]. <br> | + | <table><tr><td colspan='2'>[[5kj8]] is a 11 chain structure with sequence from [https://en.wikipedia.org/wiki/Rattus_norvegicus Rattus norvegicus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5KJ8 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5KJ8 FirstGlance]. <br> |
| - | </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene></td></tr> | + | </td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 4.1Å</td></tr> |
| - | <tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[5kj7|5kj7]]</td></tr> | + | <tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene></td></tr> |
| - | <tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">Vamp3, Syb3 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10116 Buffalo rat]), Stx1a, Sap ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10116 Buffalo rat]), Snap25, Snap ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10116 Buffalo rat]), Syt1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10116 Buffalo rat])</td></tr>
| + | <tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=5kj8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5kj8 OCA], [https://pdbe.org/5kj8 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5kj8 RCSB], [https://www.ebi.ac.uk/pdbsum/5kj8 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5kj8 ProSAT]</span></td></tr> |
| - | <tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=5kj8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5kj8 OCA], [http://pdbe.org/5kj8 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5kj8 RCSB], [http://www.ebi.ac.uk/pdbsum/5kj8 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5kj8 ProSAT]</span></td></tr> | + | |
| | </table> | | </table> |
| | == Function == | | == Function == |
| - | [[http://www.uniprot.org/uniprot/SNP25_RAT SNP25_RAT]] t-SNARE involved in the molecular regulation of neurotransmitter release. May play an important role in the synaptic function of specific neuronal systems. Associates with proteins involved in vesicle docking and membrane fusion. Regulates plasma membrane recycling through its interaction with CENPF. [[http://www.uniprot.org/uniprot/VAMP3_RAT VAMP3_RAT]] SNARE involved in vesicular transport from the late endosomes to the trans-Golgi network. [[http://www.uniprot.org/uniprot/STX1A_RAT STX1A_RAT]] Potentially involved in docking of synaptic vesicles at presynaptic active zones. May play a critical role in neurotransmitter exocytosis. May mediate Ca(2+)-regulation of exocytosis acrosomal reaction in sperm. [[http://www.uniprot.org/uniprot/SYT1_RAT SYT1_RAT]] May have a regulatory role in the membrane interactions during trafficking of synaptic vesicles at the active zone of the synapse. It binds acidic phospholipids with a specificity that requires the presence of both an acidic head group and a diacyl backbone. A Ca(2+)-dependent interaction between synaptotagmin and putative receptors for activated protein kinase C has also been reported. It can bind to at least three additional proteins in a Ca(2+)-independent manner; these are neurexins, syntaxin and AP2. | + | [https://www.uniprot.org/uniprot/VAMP3_RAT VAMP3_RAT] SNARE involved in vesicular transport from the late endosomes to the trans-Golgi network. |
| | <div style="background-color:#fffaf0;"> | | <div style="background-color:#fffaf0;"> |
| | == Publication Abstract from PubMed == | | == Publication Abstract from PubMed == |
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| | __TOC__ | | __TOC__ |
| | </StructureSection> | | </StructureSection> |
| - | [[Category: Buffalo rat]] | |
| | [[Category: Large Structures]] | | [[Category: Large Structures]] |
| - | [[Category: Brewster, A S]] | + | [[Category: Rattus norvegicus]] |
| - | [[Category: Brunger, A T]] | + | [[Category: Brewster AS]] |
| - | [[Category: Lyubimov, A Y]] | + | [[Category: Brunger AT]] |
| - | [[Category: Sauter, N K]] | + | [[Category: Lyubimov AY]] |
| - | [[Category: Uervirojnangkoorn, M]] | + | [[Category: Sauter NK]] |
| - | [[Category: Weis, W I]] | + | [[Category: Uervirojnangkoorn M]] |
| - | [[Category: Zhao, M]] | + | [[Category: Weis WI]] |
| - | [[Category: Zhou, Q]] | + | [[Category: Zhao M]] |
| - | [[Category: Endocytosis]]
| + | [[Category: Zhou Q]] |
| - | [[Category: Exocytosis]]
| + | |
| - | [[Category: Neuronal snare complex]]
| + | |
| - | [[Category: Synaptic fusion complex]]
| + | |
| - | [[Category: Synaptotagmin1]]
| + | |
| - | [[Category: Xfel structure]]
| + | |
| Structural highlights
Function
VAMP3_RAT SNARE involved in vesicular transport from the late endosomes to the trans-Golgi network.
Publication Abstract from PubMed
X-ray free electron lasers (XFELs) reduce the effects of radiation damage on macromolecular diffraction data and thereby extend the limiting resolution. Previously, we adapted classical post-refinement techniques to XFEL diffraction data to produce accurate diffraction data sets from a limited number of diffraction images (Uervirojnangkoorn et al., 2015), and went on to use these techniques to obtain a complete data set from crystals of the synaptotagmin-1 / SNARE complex and to determine the structure at 3.5 A resolution (Zhou et al., 2015). Here, we describe new advances in our methods and present a reprocessed XFEL data set of the synaptotagmin-1 / SNARE complex. The reprocessing produced small improvements in electron density maps and the refined atomic model. The maps also contained more information than those of a lower resolution (4.1 A) synchrotron data set. Processing a set of simulated XFEL diffraction images revealed that our methods yield accurate data and atomic models.
Advances in X-ray free electron laser (XFEL) diffraction data processing applied to the crystal structure of the synaptotagmin-1 / SNARE complex.,Lyubimov AY, Uervirojnangkoorn M, Zeldin OB, Zhou Q, Zhao M, Brewster AS, Michels-Clark T, Holton JM, Sauter NK, Weis WI, Brunger AT Elife. 2016 Oct 12;5. pii: e18740. doi: 10.7554/eLife.18740. PMID:27731796[1]
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.
See Also
References
- ↑ Lyubimov AY, Uervirojnangkoorn M, Zeldin OB, Zhou Q, Zhao M, Brewster AS, Michels-Clark T, Holton JM, Sauter NK, Weis WI, Brunger AT. Advances in X-ray free electron laser (XFEL) diffraction data processing applied to the crystal structure of the synaptotagmin-1 / SNARE complex. Elife. 2016 Oct 12;5. pii: e18740. doi: 10.7554/eLife.18740. PMID:27731796 doi:http://dx.doi.org/10.7554/eLife.18740
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