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, Vol. 631, Issue 8022, Page 899-904, Year 2024
Publish date	Jun 5, 2024
Authors	Chuchu Wang / Wenhong Jiang / Jeremy Leitz / Kailu Yang / Luis Esquivies / Xing Wang / Xiaotao Shen / Richard G 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 proton gradient across the synaptic vesicle, which in turn drives the uptake of neurotransmitters. Synaptophysin and its paralogues 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 / PubMed Central
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 ChemComp-BMA: beta-D-mannopyranose
Source	mus musculus (house mouse)
Keywords	MEMBRANE PROTEIN / V-ATPase / synaptic vesicle / V0only V-ATPase