[English] 日本語
![](img/lk-miru.gif)
- EMDB-44847: Tomograms of isolated synaptic vesicles from Syp-/- mouse brain -
+
Open data
-
Basic information
Entry | ![]() | |||||||||
---|---|---|---|---|---|---|---|---|---|---|
Title | Tomograms of isolated synaptic vesicles from Syp-/- mouse brain | |||||||||
![]() | tomogram of Syp-/- isolated synaptic vesicles | |||||||||
![]() |
| |||||||||
![]() | V-ATPase / synaptic vesicle / MEMBRANE PROTEIN | |||||||||
Biological species | ![]() ![]() | |||||||||
Method | electron tomography / cryo EM | |||||||||
![]() | Wang C / Jiang W / Yang K / Wang X / Guo Q / Brunger AT | |||||||||
Funding support | ![]()
| |||||||||
![]() | ![]() Title: Structure and topography of the synaptic V-ATPase-synaptophysin complex. Authors: Chuchu Wang / Wenhong Jiang / Jeremy Leitz / Kailu Yang / Luis Esquivies / Xing Wang / Xiaotao Shen / Richard Held / Daniel J Adams / Tamara Basta / Lucas Hampton / Ruiqi Jian / Lihua Jiang ...Authors: Chuchu Wang / Wenhong Jiang / Jeremy Leitz / Kailu Yang / Luis Esquivies / Xing Wang / Xiaotao Shen / Richard Held / Daniel J Adams / Tamara Basta / Lucas Hampton / Ruiqi Jian / Lihua Jiang / Michael H B Stowell / Wolfgang Baumeister / Qiang Guo / Axel T Brunger / ![]() ![]() ![]() Abstract: Synaptic vesicles are organelles with a precisely defined protein and lipid composition, yet the molecular mechanisms for the biogenesis of synaptic vesicles are mainly unknown. Here, we discovered a ...Synaptic vesicles are organelles with a precisely defined protein and lipid composition, yet the molecular mechanisms for the biogenesis of synaptic vesicles are mainly unknown. Here, we discovered a well-defined interface between the synaptic vesicle V-ATPase and synaptophysin by in situ cryo-electron tomography and single particle cryo-electron microscopy of functional synaptic vesicles isolated from mouse brains. The synaptic vesicle V-ATPase is an ATP-dependent proton pump that establishes the protein gradient across the synaptic vesicle, which in turn drives the uptake of neurotransmitters. Synaptophysin and its paralogs synaptoporin and synaptogyrin belong to a family of abundant synaptic vesicle proteins whose function is still unclear. We performed structural and functional studies of synaptophysin knockout mice, confirming the identity of synaptophysin as an interaction partner with the V-ATPase. Although there is little change in the conformation of the V-ATPase upon interaction with synaptophysin, the presence of synaptophysin in synaptic vesicles profoundly affects the copy number of V-ATPases. This effect on the topography of synaptic vesicles suggests that synaptophysin assists in their biogenesis. In support of this model, we observed that synaptophysin knockout mice exhibit severe seizure susceptibility, suggesting an imbalance of neurotransmitter release as a physiological consequence of the absence of synaptophysin. | |||||||||
History |
|
-
Structure visualization
Supplemental images |
---|
-
Downloads & links
-EMDB archive
Map data | ![]() | 242.2 MB | ![]() | |
---|---|---|---|---|
Header (meta data) | ![]() ![]() | 30.6 KB 30.6 KB | Display Display | ![]() |
Images | ![]() | 165.2 KB | ||
Filedesc metadata | ![]() | 4.4 KB | ||
Others | ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() | 242.3 MB 242.2 MB 242.2 MB 242.2 MB 242.3 MB 242.4 MB 242.3 MB 242.2 MB 242.2 MB 242.3 MB | ||
Archive directory | ![]() ![]() | HTTPS FTP |
-Validation report
Summary document | ![]() | 542.5 KB | Display | ![]() |
---|---|---|---|---|
Full document | ![]() | 542 KB | Display | |
Data in XML | ![]() | 4.9 KB | Display | |
Data in CIF | ![]() | 5.5 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
-
Links
EMDB pages | ![]() ![]() |
---|
-
Map
File | ![]() | ||||||||||||||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Annotation | tomogram of Syp-/- isolated synaptic vesicles | ||||||||||||||||||||||||||||||||
Projections & slices | Image control
Images are generated by Spider. generated in cubic-lattice coordinate | ||||||||||||||||||||||||||||||||
Voxel size | X=Y=Z: 8.888 Å | ||||||||||||||||||||||||||||||||
Density |
| ||||||||||||||||||||||||||||||||
Symmetry | Space group: 1 | ||||||||||||||||||||||||||||||||
Details | EMDB XML:
|
-Supplemental data
+Additional map: tomogram of Syp-/- isolated synaptic vesicles
+Additional map: tomogram of Syp-/- isolated synaptic vesicles
+Additional map: tomogram of Syp-/- isolated synaptic vesicles
+Additional map: tomogram of Syp-/- isolated synaptic vesicles
+Additional map: tomogram of Syp-/- isolated synaptic vesicles
+Additional map: tomogram of Syp-/- isolated synaptic vesicles
+Additional map: tomogram of Syp-/- isolated synaptic vesicles
+Additional map: tomogram of Syp-/- isolated synaptic vesicles
+Additional map: tomogram of Syp-/- isolated synaptic vesicles
+Additional map: tomogram of Syp-/- isolated synaptic vesicles
-
Sample components
-Entire : Mouse brain isolated glutamatergic synaptic vesicles
Entire | Name: Mouse brain isolated glutamatergic synaptic vesicles |
---|---|
Components |
|
-Supramolecule #1: Mouse brain isolated glutamatergic synaptic vesicles
Supramolecule | Name: Mouse brain isolated glutamatergic synaptic vesicles / type: organelle_or_cellular_component / ID: 1 / Parent: 0 / Macromolecule list: #1-#9 |
---|---|
Source (natural) | Organism: ![]() ![]() |
-Experimental details
-Structure determination
Method | cryo EM |
---|---|
![]() | electron tomography |
Aggregation state | cell |
-
Sample preparation
Buffer | pH: 7.4 |
---|---|
Vitrification | Cryogen name: ETHANE |
Details | The specimen state should be an intact subcellular component. |
Sectioning | Other: NO SECTIONING |
-
Electron microscopy
Microscope | TFS KRIOS |
---|---|
Image recording | Film or detector model: GATAN K3 BIOQUANTUM (6k x 4k) / Average electron dose: 50.0 e/Å2 |
Electron beam | Acceleration voltage: 300 kV / Electron source: ![]() |
Electron optics | Illumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD / Nominal defocus max: 2.0 µm / Nominal defocus min: 0.8 µm |
Experimental equipment | ![]() Model: Titan Krios / Image courtesy: FEI Company |
-
Image processing
Final reconstruction | Number images used: 41 |
---|
-Atomic model buiding 1
Refinement | Protocol: FLEXIBLE FIT |
---|