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Open data
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Basic information
Entry | Database: PDB / ID: 7ovq | |||||||||||||||||||||||||||
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Title | Immature HIV-1 matrix structure | |||||||||||||||||||||||||||
![]() | Gag polyprotein | |||||||||||||||||||||||||||
![]() | VIRUS / HIV-1 / Gag / matrix | |||||||||||||||||||||||||||
Function / homology | ![]() viral process / viral nucleocapsid / host cell cytoplasm / host cell nucleus / virion membrane / structural molecule activity / RNA binding / zinc ion binding / ATP binding / cytoplasm Similarity search - Function | |||||||||||||||||||||||||||
Biological species | ![]() ![]() | |||||||||||||||||||||||||||
Method | ELECTRON MICROSCOPY / subtomogram averaging / cryo EM / Resolution: 7.2 Å | |||||||||||||||||||||||||||
![]() | 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 | ![]()
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![]() | ![]() 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
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Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 359.6 KB | Display | ![]() |
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PDB format | ![]() | 242.3 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 593.7 KB | Display | ![]() |
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Full document | ![]() | 605.6 KB | Display | |
Data in XML | ![]() | 39.6 KB | Display | |
Data in CIF | ![]() | 64.8 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 13087MC ![]() 7ovrC M: map data used to model this data C: citing same article ( |
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Similar structure data |
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Links
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Assembly
Deposited unit | ![]()
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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.) ![]() ![]() ![]() #2: Chemical | ChemComp-MYR / 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 |
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Sample preparation
Component | Name: Human immunodeficiency virus 1 / Type: VIRUS Details: HIV-1 NL4-3 protease defective (D25A) virus particles purified from HEK293T cells. Entity ID: #1 / Source: RECOMBINANT |
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Source (natural) | Organism: ![]() ![]() |
Source (recombinant) | Organism: ![]() |
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: HIV-1 NL4-3 protease defective (D25A) virus particles purified from HEK293T cells. |
Vitrification | Cryogen name: ETHANE |
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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: ![]() |
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 e/Å2 / Detector mode: SUPER-RESOLUTION / Film or detector model: GATAN K2 QUANTUM (4k x 4k) / Details: Number of frames ranged from 10-12. |
EM imaging optics | Energyfilter name: GIF Quantum LS / Energyfilter slit width: 20 eV |
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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: 7.2 Å / Resolution method: FSC 0.143 CUT-OFF / Num. of particles: 22417 / Symmetry type: POINT | |||||||||||||||||||||
EM volume selection | Num. of tomograms: 74 / Num. of volumes extracted: 251207 | |||||||||||||||||||||
Atomic model building | Protocol: RIGID BODY FIT Details: Only the backbone of the protein model was fitted as a rigid body. | |||||||||||||||||||||
Atomic model building | PDB-ID: 2H3Q |