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Yorodumi- EMDB-1482: Structrue of truncated portal(portal602) complex with gp4 from ba... -
+Open data
-Basic information
Entry | Database: EMDB / ID: EMD-1482 | |||||||||
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Title | Structrue of truncated portal(portal602) complex with gp4 from bacteriophage P22 | |||||||||
Map data | map of portal602 complex with gp4 | |||||||||
Sample |
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Biological species | Enterobacteria phage P22 (virus) | |||||||||
Method | single particle reconstruction / cryo EM / Resolution: 8.5 Å | |||||||||
Authors | Zheng H / Olia AS / Gonen M / Andrews S / Cingolani G / Gonen T | |||||||||
Citation | Journal: Mol Cell / Year: 2008 Title: A conformational switch in bacteriophage p22 portal protein primes genome injection. Authors: Hongjin Zheng / Adam S Olia / Melissa Gonen / Simeon Andrews / Gino Cingolani / Tamir Gonen / Abstract: Double-stranded DNA (dsDNA) viruses such as herpesviruses and bacteriophages infect by delivering their genetic material into cells, a task mediated by a DNA channel called "portal protein." We have ...Double-stranded DNA (dsDNA) viruses such as herpesviruses and bacteriophages infect by delivering their genetic material into cells, a task mediated by a DNA channel called "portal protein." We have used electron cryomicroscopy to determine the structure of bacteriophage P22 portal protein in both the procapsid and mature capsid conformations. We find that, just as the viral capsid undergoes major conformational changes during virus maturation, the portal protein switches conformation from a procapsid to a mature phage state upon binding of gp4, the factor that initiates tail assembly. This dramatic conformational change traverses the entire length of the DNA channel, from the outside of the virus to the inner shell, and erects a large dome domain directly above the DNA channel that binds dsDNA inside the capsid. We hypothesize that this conformational change primes dsDNA for injection and directly couples completion of virus morphogenesis to a new cycle of infection. | |||||||||
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_1482.map.gz | 5.5 MB | EMDB map data format | |
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Header (meta data) | emd-1482-v30.xml emd-1482.xml | 6.2 KB 6.2 KB | Display Display | EMDB header |
Images | 1482.gif | 26.5 KB | ||
Archive directory | http://ftp.pdbj.org/pub/emdb/structures/EMD-1482 ftp://ftp.pdbj.org/pub/emdb/structures/EMD-1482 | HTTPS FTP |
-Validation report
Summary document | emd_1482_validation.pdf.gz | 236.9 KB | Display | EMDB validaton report |
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Full document | emd_1482_full_validation.pdf.gz | 236.1 KB | Display | |
Data in XML | emd_1482_validation.xml.gz | 5.4 KB | Display | |
Arichive directory | https://ftp.pdbj.org/pub/emdb/validation_reports/EMD-1482 ftp://ftp.pdbj.org/pub/emdb/validation_reports/EMD-1482 | HTTPS FTP |
-Related structure data
-Links
EMDB pages | EMDB (EBI/PDBe) / EMDataResource |
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-Map
File | Download / File: emd_1482.map.gz / Format: CCP4 / Size: 6.4 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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Annotation | map of portal602 complex with gp4 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Projections & slices | Image control
Images are generated by Spider. | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Voxel size | X=Y=Z: 2.48 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 : truncated portal complex with gp4 from bacteriophage P22
Entire | Name: truncated portal complex with gp4 from bacteriophage P22 |
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Components |
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-Supramolecule #1000: truncated portal complex with gp4 from bacteriophage P22
Supramolecule | Name: truncated portal complex with gp4 from bacteriophage P22 type: sample / ID: 1000 / Oligomeric state: 12mer of portal with 12mer of gp4 / Number unique components: 2 |
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-Macromolecule #1: gp1, gp4
Macromolecule | Name: gp1, gp4 / type: protein_or_peptide / ID: 1 / Name.synonym: gp1, gp4 / Recombinant expression: Yes |
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Source (natural) | Organism: Enterobacteria phage P22 (virus) |
-Experimental details
-Structure determination
Method | cryo EM |
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Processing | single particle reconstruction |
Aggregation state | particle |
-Sample preparation
Vitrification | Cryogen name: ETHANE / Instrument: OTHER |
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-Electron microscopy
Microscope | FEI TECNAI F20 |
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Electron beam | Acceleration voltage: 200 kV / Electron source: FIELD EMISSION GUN |
Electron optics | Illumination mode: OTHER / Imaging mode: OTHER |
Sample stage | Specimen holder: Eucentric / Specimen holder model: OTHER |
Experimental equipment | Model: Tecnai F20 / Image courtesy: FEI Company |
-Image processing
Final reconstruction | Applied symmetry - Point group: C12 (12 fold cyclic) / Resolution.type: BY AUTHOR / Resolution: 8.5 Å / Resolution method: FSC 0.143 CUT-OFF |
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