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Yorodumi- EMDB-30104: The density map of the dodecameric terminase complex in the prese... -
+Open data
-Basic information
Entry | Database: EMDB / ID: EMD-30104 | |||||||||
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Title | The density map of the dodecameric terminase complex in the presence of the ADP-BeF3 | |||||||||
Map data | ||||||||||
Sample |
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Biological species | Human herpesvirus 1 (Herpes simplex virus type 1) | |||||||||
Method | single particle reconstruction / cryo EM / Resolution: 4.6 Å | |||||||||
Authors | Yang YX / Yang P / Wang N / Chen ZH / Zhou ZH / Rao ZH / Wang XX | |||||||||
Funding support | China, 1 items
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Citation | Journal: To Be Published Title: The density map of the dodecameric terminase complex in the presence of the ADP-BeF3 Authors: Yang YX / Yang P / Wang N / Chen ZH / Zhou ZH / Rao ZH / Wang XX | |||||||||
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_30104.map.gz | 20.7 MB | EMDB map data format | |
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Header (meta data) | emd-30104-v30.xml emd-30104.xml | 7.1 KB 7.1 KB | Display Display | EMDB header |
Images | emd_30104.png | 161.9 KB | ||
Archive directory | http://ftp.pdbj.org/pub/emdb/structures/EMD-30104 ftp://ftp.pdbj.org/pub/emdb/structures/EMD-30104 | HTTPS FTP |
-Validation report
Summary document | emd_30104_validation.pdf.gz | 397.9 KB | Display | EMDB validaton report |
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Full document | emd_30104_full_validation.pdf.gz | 397.5 KB | Display | |
Data in XML | emd_30104_validation.xml.gz | 5.6 KB | Display | |
Arichive directory | https://ftp.pdbj.org/pub/emdb/validation_reports/EMD-30104 ftp://ftp.pdbj.org/pub/emdb/validation_reports/EMD-30104 | HTTPS FTP |
-Related structure data
Similar structure data |
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-Links
EMDB pages | EMDB (EBI/PDBe) / EMDataResource |
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-Map
File | Download / File: emd_30104.map.gz / Format: CCP4 / Size: 22.2 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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Voxel size | X=Y=Z: 1.04 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 : HSV-1 terminase complex
Entire | Name: HSV-1 terminase complex |
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Components |
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-Supramolecule #1: HSV-1 terminase complex
Supramolecule | Name: HSV-1 terminase complex / type: complex / ID: 1 / Parent: 0 |
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Source (natural) | Organism: Human herpesvirus 1 (Herpes simplex virus type 1) |
Recombinant expression | Organism: Spodoptera frugiperda (fall armyworm) |
-Experimental details
-Structure determination
Method | cryo EM |
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Processing | single particle reconstruction |
Aggregation state | particle |
-Sample preparation
Buffer | pH: 7.5 |
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Vitrification | Cryogen name: ETHANE |
-Electron microscopy
Microscope | FEI TITAN KRIOS |
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Image recording | Film or detector model: GATAN K2 QUANTUM (4k x 4k) / Average electron dose: 2.0 e/Å2 |
Electron beam | Acceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN |
Electron optics | Illumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD |
Experimental equipment | Model: Titan Krios / Image courtesy: FEI Company |
-Image processing
Final reconstruction | Resolution.type: BY AUTHOR / Resolution: 4.6 Å / Resolution method: FSC 0.143 CUT-OFF / Number images used: 3890 |
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Initial angle assignment | Type: RANDOM ASSIGNMENT |
Final angle assignment | Type: MAXIMUM LIKELIHOOD |