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	Molecular basis for the acid-initiated uncoating of human enterovirus D68.
Journal, issue, pages	Proc Natl Acad Sci U S A, Vol. 115, Issue 52, Page E12209-E12217, Year 2018
Publish date	Dec 26, 2018
Authors	Yue Liu / Ju Sheng / Arno L W van Vliet / Geeta Buda / Frank J M van Kuppeveld / Michael G Rossmann /
PubMed Abstract	Enterovirus D68 (EV-D68) belongs to a group of enteroviruses that contain a single positive-sense RNA genome surrounded by an icosahedral capsid. Like common cold viruses, EV-D68 mainly causes ...Enterovirus D68 (EV-D68) belongs to a group of enteroviruses that contain a single positive-sense RNA genome surrounded by an icosahedral capsid. Like common cold viruses, EV-D68 mainly causes respiratory infections and is acid-labile. The molecular mechanism by which the acid-sensitive EV-D68 virions uncoat and deliver their genome into a host cell is unknown. Using cryoelectron microscopy (cryo-EM), we have determined the structures of the full native virion and an uncoating intermediate [the A (altered) particle] of EV-D68 at 2.2- and 2.7-Å resolution, respectively. These structures showed that acid treatment of EV-D68 leads to particle expansion, externalization of the viral protein VP1 N termini from the capsid interior, and formation of pores around the icosahedral twofold axes through which the viral RNA can exit. Moreover, because of the low stability of EV-D68, cryo-EM analyses of a mixed population of particles at neutral pH and following acid treatment demonstrated the involvement of multiple structural intermediates during virus uncoating. Among these, a previously undescribed state, the expanded 1 ("E1") particle, shows a majority of internal regions (e.g., the VP1 N termini) to be ordered as in the full native virion. Thus, the E1 particle acts as an intermediate in the transition from full native virions to A particles. Together, the present work delineates the pathway of EV-D68 uncoating and provides the molecular basis for the acid lability of EV-D68 and of the related common cold viruses.
External links	Proc Natl Acad Sci U S A / PubMed:30530701 / PubMed Central
Methods	EM (single particle)
Resolution	2.17 - 3.75 Å
Structure data	7567 6crp EMDB-7567, PDB-6crp: CryoEM structure of human enterovirus D68 abortive product 1 (pH 7.2 and 4 degrees Celsius) Method: EM (single particle) / Resolution: 3.24 Å 7569 6crr EMDB-7569, PDB-6crr: CryoEM structure of human enterovirus D68 full native virion (pH 7.2 and 4 degrees Celsius) Method: EM (single particle) / Resolution: 3.24 Å 7571 6crs EMDB-7571, PDB-6crs: CryoEM structure of human enterovirus D68 A-particle (pH 7.2 and 4 degrees Celsius) Method: EM (single particle) / Resolution: 3.24 Å 7572 6cru EMDB-7572, PDB-6cru: CryoEM structure of human enterovirus D68 emptied particle (pH 7.2 and 4 degrees Celsius) Method: EM (single particle) / Resolution: 3.32 Å 7583 6cs3 EMDB-7583, PDB-6cs3: CryoEM structure of human enterovirus D68 expanded 1 particle (pH 7.2 and 4 degrees Celsius) Method: EM (single particle) / Resolution: 3.31 Å 7589 6cs4 EMDB-7589, PDB-6cs4: CryoEM structure of human enterovirus D68 A-particle (pH 5.5 and 33 degrees Celsius) Method: EM (single particle) / Resolution: 2.73 Å 7592 6cs5 EMDB-7592, PDB-6cs5: CryoEM structure of human enterovirus D68 abortive product 2 (pH 7.2 and 4 degrees Celsius) Method: EM (single particle) / Resolution: 3.24 Å 7593 6cs6 EMDB-7593, PDB-6cs6: CryoEM structure of human enterovirus D68 A-particle (pH 5.5 and room temperature) Method: EM (single particle) / Resolution: 3.25 Å 7598 6csa EMDB-7598, PDB-6csa: CryoEM structure of human enterovirus D68 emptied particle (pH 5.5 and room temperature) Method: EM (single particle) / Resolution: 3.75 Å 7599 6csg EMDB-7599, PDB-6csg: CryoEM structure of human enterovirus D68 full native virion Method: EM (single particle) / Resolution: 2.17 Å 7600 6csh EMDB-7600, PDB-6csh: CryoEM structure of human enterovirus D68 emptied particle (pH 5.5 and 33 degrees Celsius) Method: EM (single particle) / Resolution: 2.9 Å EMDB-9053: CryoEM structure of human enterovirus D68 full native virion (pH 6.5, 4 degrees Celsius, 3 min) Method: EM (single particle) / Resolution: 3.46 Å EMDB-9054: CryoEM structure of human enterovirus D68 A-particle (pH 6.5, 4 degrees Celsius, 3 min) Method: EM (single particle) / Resolution: 3.46 Å 9055 6mzi EMDB-9055, PDB-6mzi: CryoEM structure of human enterovirus D68 expanded 1 particle (pH 6.5, 4 degrees Celsius, 3 min) Method: EM (single particle) / Resolution: 3.46 Å EMDB-9056: CryoEM structure of human enterovirus D68 full native virion (pH 6.5, room temperature, 3 min) Method: EM (single particle) / Resolution: 3.46 Å EMDB-9057: CryoEM structure of human enterovirus D68 A-particle (pH 6.5, room temperature, 3 min) Method: EM (single particle) / Resolution: 3.46 Å EMDB-9058: CryoEM structure of human enterovirus D68 full native virion (pH 6.0, room temperature, 30 sec) Method: EM (single particle) / Resolution: 3.46 Å EMDB-9059: CryoEM structure of human enterovirus D68 A-particle (pH 6.0, room temperature, 30 sec) Method: EM (single particle) / Resolution: 3.46 Å EMDB-9060: CryoEM structure of human enterovirus D68 A-particle (pH 6.0, room temperature, 3 min) Method: EM (single particle) / Resolution: 3.46 Å
Chemicals	ChemComp-HOH: WATER / Water
Source	enterovirus d68
Keywords	VIRUS / genome release / acid