+Open data
-Basic information
Entry | Database: PDB / ID: 7ovr | |||||||||||||||||||||||||||
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Title | Mature HIV-1 matrix structure | |||||||||||||||||||||||||||
Components | HIV-1 matrix | |||||||||||||||||||||||||||
Keywords | VIRUS / HIV-1 / Gag / matrix | |||||||||||||||||||||||||||
Function / homology | Function and homology information viral nucleocapsid / host cell cytoplasm / viral translational frameshifting / host cell nucleus / structural molecule activity / virion membrane / RNA binding / zinc ion binding / ATP binding / cytoplasm Similarity search - Function | |||||||||||||||||||||||||||
Biological species | Human immunodeficiency virus 1 | |||||||||||||||||||||||||||
Method | ELECTRON MICROSCOPY / subtomogram averaging / cryo EM / Resolution: 7 Å | |||||||||||||||||||||||||||
Authors | Qu, K. / Ke, Z.L. / Zila, V. / Anders-Oesswein, M. / Glass, B. / Muecksch, F. / Mueller, R. / Schultz, C. / Mueller, B. / Kraeusslich, H.G. / Briggs, J.A.G. | |||||||||||||||||||||||||||
Funding support | European Union, United Kingdom, Germany, United States, 8items
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Citation | Journal: Science / Year: 2021 Title: Maturation of the matrix and viral membrane of HIV-1. Authors: Kun Qu / Zunlong Ke / Vojtech Zila / Maria Anders-Össwein / Bärbel Glass / Frauke Mücksch / Rainer Müller / Carsten Schultz / Barbara Müller / Hans-Georg Kräusslich / John A G Briggs / Abstract: Gag, the primary structural protein of HIV-1, is recruited to the plasma membrane for virus assembly by its matrix (MA) domain. Gag is subsequently cleaved into its component domains, causing ...Gag, the primary structural protein of HIV-1, is recruited to the plasma membrane for virus assembly by its matrix (MA) domain. Gag is subsequently cleaved into its component domains, causing structural maturation to repurpose the virion for cell entry. We determined the structure and arrangement of MA within immature and mature HIV-1 through cryo-electron tomography. We found that MA rearranges between two different hexameric lattices upon maturation. In mature HIV-1, a lipid extends out of the membrane to bind with a pocket in MA. Our data suggest that proteolytic maturation of HIV-1 not only assembles the viral capsid surrounding the genome but also repurposes the membrane-bound MA lattice for an entry or postentry function and results in the partial removal of up to 2500 lipids from the viral membrane. | |||||||||||||||||||||||||||
History |
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-Structure visualization
Movie |
Movie viewer |
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Structure viewer | Molecule: MolmilJmol/JSmol |
-Downloads & links
-Download
PDBx/mmCIF format | 7ovr.cif.gz | 384.2 KB | Display | PDBx/mmCIF format |
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PDB format | pdb7ovr.ent.gz | 272.4 KB | Display | PDB format |
PDBx/mmJSON format | 7ovr.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 7ovr_validation.pdf.gz | 2 MB | Display | wwPDB validaton report |
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Full document | 7ovr_full_validation.pdf.gz | 2.1 MB | Display | |
Data in XML | 7ovr_validation.xml.gz | 48 KB | Display | |
Data in CIF | 7ovr_validation.cif.gz | 73.4 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/ov/7ovr ftp://data.pdbj.org/pub/pdb/validation_reports/ov/7ovr | HTTPS FTP |
-Related structure data
Related structure data | 13088MC 7ovqC M: map data used to model this data C: citing same article (ref.) |
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Similar structure data |
-Links
-Assembly
Deposited unit |
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1 |
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-Components
#1: Protein | Mass: 13084.983 Da / Num. of mol.: 24 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Human immunodeficiency virus 1 / Production host: Homo sapiens (human) / References: UniProt: B6DRA0 #2: Chemical | ChemComp-MYR / #3: Chemical | ChemComp-PIO / [( Has ligand of interest | Y | |
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-Experimental details
-Experiment
Experiment | Method: ELECTRON MICROSCOPY |
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EM experiment | Aggregation state: PARTICLE / 3D reconstruction method: subtomogram averaging |
-Sample preparation
Component | Name: Human immunodeficiency virus 1 / Type: VIRUS Details: cHIV MA-SP1 Gag proteolytic cleavage mutant virus particles purified from HEK293T cells. Entity ID: #1 / Source: RECOMBINANT |
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Source (natural) | Organism: Human immunodeficiency virus 1 |
Source (recombinant) | Organism: Homo sapiens (human) |
Details of virus | Empty: NO / Enveloped: YES / Isolate: STRAIN / Type: VIRION |
Buffer solution | pH: 7.4 |
Specimen | Embedding applied: NO / Shadowing applied: NO / Staining applied: NO / Vitrification applied: YES Details: cHIV MA-SP1 Gag proteolytic cleavage mutant virus particles purified from HEK293T cells. |
Vitrification | Cryogen name: ETHANE |
-Electron microscopy imaging
Experimental equipment | Model: Titan Krios / Image courtesy: FEI Company |
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Microscopy | Model: FEI TITAN KRIOS |
Electron gun | Electron source: FIELD EMISSION GUN / Accelerating voltage: 300 kV / Illumination mode: FLOOD BEAM |
Electron lens | Mode: BRIGHT FIELD / Nominal magnification: 105000 X / Nominal defocus max: 5000 nm / Nominal defocus min: 1500 nm / Cs: 2.7 mm / C2 aperture diameter: 50 µm |
Specimen holder | Cryogen: NITROGEN / Specimen holder model: FEI TITAN KRIOS AUTOGRID HOLDER |
Image recording | Electron dose: 3.5 e/Å2 / Detector mode: SUPER-RESOLUTION / Film or detector model: GATAN K2 QUANTUM (4k x 4k) |
EM imaging optics | Energyfilter name: GIF Quantum LS / Energyfilter slit width: 20 eV |
-Processing
EM software |
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CTF correction | Type: PHASE FLIPPING AND AMPLITUDE CORRECTION | |||||||||||||||||||||
Symmetry | Point symmetry: C3 (3 fold cyclic) | |||||||||||||||||||||
3D reconstruction | Resolution: 7 Å / Resolution method: FSC 0.143 CUT-OFF / Num. of particles: 19586 / Symmetry type: POINT | |||||||||||||||||||||
EM volume selection | Num. of tomograms: 65 / Num. of volumes extracted: 119343 | |||||||||||||||||||||
Atomic model building | Protocol: RIGID BODY FIT Details: Only the backbone of the protein model was fitted as a rigid body. | |||||||||||||||||||||
Atomic model building |
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