Database of articles cited by EMDB/PDB/SASBDB data

Keywords
Structure methods	All X-ray diffraction NMR electron microscopy small angle scattering neutron diffraction fiber diffraction powder diffraction infrared spectroscopy EPR fluorescence transfer theoretical model Hybrid
Author
Journal
IF	>30 >20 >10 >5 all

Title	Structure and topography of the synaptic V-ATPase-synaptophysin complex.
Journal, issue, pages	Nature, Year 2024
Publish date	Jun 5, 2024
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 /
PubMed 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.
External links	Nature / PubMed:38838737
Methods	EM (single particle) / EM (tomography) / EM (subtomogram averaging)
Resolution	3.6 - 18.2 Å
Structure data	44839 9bra EMDB-44839, PDB-9bra: Intact V-ATPase State 2 and synaptophysin complex in mouse brain isolated synaptic vesicles Method: EM (single particle) / Resolution: 4.3 Å 44840 9brq EMDB-44840, PDB-9brq: Intact V-ATPase State 3 and synaptophysin complex in mouse brain isolated synaptic vesicles Method: EM (single particle) / Resolution: 4.3 Å 44841 9brr EMDB-44841, PDB-9brr: Intact V-ATPase State 3 in synaptophysin knock-out isolated synaptic vesicles Method: EM (single particle) / Resolution: 4.5 Å 44842 9brs EMDB-44842, PDB-9brs: Intact V-ATPase State 2 in synaptophysin knock-out isolated synaptic vesicles Method: EM (single particle) / Resolution: 4.4 Å 44843 9brt EMDB-44843, PDB-9brt: Intact V-ATPase State 1 and synaptophysin complex in mouse brain isolated synaptic vesicles Method: EM (single particle) / Resolution: 4.3 Å 44844 9bru EMDB-44844, PDB-9bru: Intact V-ATPase State 1 in synaptophysin knock-out isolated synaptic vesicles Method: EM (single particle) / Resolution: 4.4 Å 44845 9bry EMDB-44845, PDB-9bry: V0-only V-ATPase in synaptophysin gene knock-out mouse brain isolated synaptic vesicles Method: EM (single particle) / Resolution: 3.6 Å 44846 9brz EMDB-44846, PDB-9brz: V0-only V-ATPase and synaptophysin complex in mouse brain isolated synaptic vesicles Method: EM (single particle) / Resolution: 3.8 Å EMDB-44847: Tomograms of isolated synaptic vesicles from Syp-/- mouse brain Method: EM (tomography) EMDB-44848: Tomograms of isolated synaptic vesicles from wild-type mouse brain Method: EM (tomography) EMDB-44855: Intact state1 V-ATPase of isolated synaptic vesicles from wild-type mouse brain by subtomogram averaging Method: EM (subtomogram averaging) / Resolution: 18.2 Å EMDB-44856: Intact state2 V-ATPase of isolated synaptic vesicles from wild-type mouse brain by subtomogram averaging Method: EM (subtomogram averaging) / Resolution: 15.9 Å EMDB-44857: Intact state3 V-ATPase of isolated synaptic vesicles from wild-type mouse brain by subtomogram averaging Method: EM (subtomogram averaging) / Resolution: 17.1 Å EMDB-44858: V0-only V-ATPase of isolated synaptic vesicles from wild-type mouse brain by subtomogram averaging Method: EM (subtomogram averaging) / Resolution: 16.0 Å
Chemicals	ChemComp-NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose / N-Acetylglucosamine ChemComp-BMA: beta-D-mannopyranose / Mannose
Source	mus musculus (house mouse)
Keywords	MEMBRANE PROTEIN / V-ATPase / synaptic vesicle / V0only V-ATPase