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Yorodumi- EMDB-8425: Chikungunya virus-like particle inserted with circumsporozoite pr... -
+Open data
-Basic information
Entry | Database: EMDB / ID: EMD-8425 | |||||||||
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Title | Chikungunya virus-like particle inserted with circumsporozoite protein peptides of Plasmodium falciparum in complex with Fab fragment of neutralizing antibody DG2 | |||||||||
Map data | Chikungunya virus-like particle inserted with circumsporozoite protein peptides of Plasmodium falciparum in complex with Fab fragment of neutralizing antibody DG2 | |||||||||
Sample |
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Biological species | Mus musculus (house mouse) / Chikungunya virus strain Senegal 37997 | |||||||||
Method | single particle reconstruction / cryo EM / Resolution: 12.2 Å | |||||||||
Authors | Yap ML / Urakami A / Sakurai A / Ishikawa M / Rossmann MG / Akahata W | |||||||||
Citation | Journal: Clin Vaccine Immunol / Year: 2017 Title: Development of a Novel Virus-Like Particle Vaccine Platform That Mimics the Immature Form of Alphavirus. Authors: Akane Urakami / Atsuko Sakurai / Momoko Ishikawa / Moh Lan Yap / Yevel Flores-Garcia / Yasunari Haseda / Taiki Aoshi / Fidel P Zavala / Michael G Rossmann / Sachiko Kuno / Ryuji Ueno / Wataru Akahata / Abstract: Virus-like particles (VLPs) are noninfectious multiprotein structures that are engineered to self-assemble from viral structural proteins. Here, we developed a novel VLP-based vaccine platform ...Virus-like particles (VLPs) are noninfectious multiprotein structures that are engineered to self-assemble from viral structural proteins. Here, we developed a novel VLP-based vaccine platform utilizing VLPs from the chikungunya virus. We identified two regions within the envelope protein, a structural component of chikungunya, where foreign antigens can be inserted without compromising VLP structure. Our VLP displays 480 copious copies of an inserted antigen on the VLP surface in a highly symmetric manner and is thus capable of inducing strong immune responses against any inserted antigen. Furthermore, by mimicking the structure of the immature form of the virus, we altered our VLP's dynamics and enhanced its immunogenicity. We used the circumsporozoite protein (CSP) of the malaria parasite as an antigen and demonstrated that our VLP-based vaccine elicits strong immune responses against CSP in animals. The sera from immunized monkeys protected mice from malaria infection. Likewise, mice vaccinated with CSP-containing VLPs were protected from an infectious sporozoite challenge. Hence, our uniquely engineered VLP platform can serve as a blueprint for the development of vaccines against other pathogens and diseases. | |||||||||
History |
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-Structure visualization
Movie |
Movie viewer |
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Structure viewer | EM map: SurfViewMolmilJmol/JSmol |
Supplemental images |
-Downloads & links
-EMDB archive
Map data | emd_8425.map.gz | 200.1 MB | EMDB map data format | |
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Header (meta data) | emd-8425-v30.xml emd-8425.xml | 9.3 KB 9.3 KB | Display Display | EMDB header |
FSC (resolution estimation) | emd_8425_fsc.xml | 16 KB | Display | FSC data file |
Images | emd_8425.png | 254 KB | ||
Archive directory | http://ftp.pdbj.org/pub/emdb/structures/EMD-8425 ftp://ftp.pdbj.org/pub/emdb/structures/EMD-8425 | HTTPS FTP |
-Validation report
Summary document | emd_8425_validation.pdf.gz | 78.6 KB | Display | EMDB validaton report |
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Full document | emd_8425_full_validation.pdf.gz | 77.7 KB | Display | |
Data in XML | emd_8425_validation.xml.gz | 494 B | Display | |
Arichive directory | https://ftp.pdbj.org/pub/emdb/validation_reports/EMD-8425 ftp://ftp.pdbj.org/pub/emdb/validation_reports/EMD-8425 | HTTPS FTP |
-Related structure data
-Links
EMDB pages | EMDB (EBI/PDBe) / EMDataResource |
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-Map
File | Download / File: emd_8425.map.gz / Format: CCP4 / Size: 216 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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Annotation | Chikungunya virus-like particle inserted with circumsporozoite protein peptides of Plasmodium falciparum in complex with Fab fragment of neutralizing antibody DG2 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Voxel size | X=Y=Z: 2.6 Å | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Density |
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Symmetry | Space group: 1 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Details | EMDB XML:
CCP4 map header:
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-Supplemental data
-Sample components
-Entire : Chikungunya virus / Fab complex
Entire | Name: Chikungunya virus / Fab complex |
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Components |
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-Supramolecule #1: Chikungunya virus / Fab complex
Supramolecule | Name: Chikungunya virus / Fab complex / type: complex / ID: 1 / Parent: 0 |
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-Supramolecule #2: Chikungunya virus strain Senegal 37997
Supramolecule | Name: Chikungunya virus strain Senegal 37997 / type: virus / ID: 2 / Parent: 1 / NCBI-ID: 371095 / Sci species name: Chikungunya virus strain Senegal 37997 / Virus type: VIRUS-LIKE PARTICLE / Virus isolate: STRAIN / Virus enveloped: Yes / Virus empty: No |
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Host system | Organism: Homo sapiens (human) / Recombinant cell: Human embryonic kidney / Recombinant plasmid: pUC59 |
-Supramolecule #3: Fab fragment of neutralizing antibody DG2
Supramolecule | Name: Fab fragment of neutralizing antibody DG2 / type: organelle_or_cellular_component / ID: 3 / Parent: 1 |
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Source (natural) | Organism: Mus musculus (house mouse) |
-Experimental details
-Structure determination
Method | cryo EM |
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Processing | single particle reconstruction |
Aggregation state | particle |
-Sample preparation
Concentration | 3 mg/mL |
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Buffer | pH: 7.4 |
Vitrification | Cryogen name: ETHANE |
-Electron microscopy
Microscope | FEI TITAN KRIOS |
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Image recording | Film or detector model: GATAN K2 SUMMIT (4k x 4k) / Average electron dose: 36.0 e/Å2 |
Electron beam | Acceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN |
Electron optics | Illumination mode: SPOT SCAN / Imaging mode: BRIGHT FIELD |
Experimental equipment | Model: Titan Krios / Image courtesy: FEI Company |