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Yorodumi- EMDB-41161: gH base local refinement for HCMV Trimer in complex with CS2it1p2... -
+Open data
-Basic information
Entry | Database: EMDB / ID: EMD-41161 | |||||||||
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Title | gH base local refinement for HCMV Trimer in complex with CS2it1p2_F7K Fab and CS4tt1p1_E3K Fab | |||||||||
Map data | gH base local refinement map for HCMV Trimer in complex with CS2it1p2_F7K Fab and CS4tt1p1_E3K Fab | |||||||||
Sample |
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Keywords | Virus / glycoprotein / antibody / VIRAL PROTEIN | |||||||||
Biological species | Human betaherpesvirus 5 / Homo sapiens (human) | |||||||||
Method | single particle reconstruction / cryo EM / Resolution: 3.0 Å | |||||||||
Authors | Goldsmith JG / McLellan JS | |||||||||
Funding support | 1 items
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Citation | Journal: To Be Published Title: HCMV neutralization by broad antibody targeting Authors: Zehner M / Goldsmith JG / McLellan JS / Klein F | |||||||||
History |
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-Structure visualization
Supplemental images |
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-Downloads & links
-EMDB archive
Map data | emd_41161.map.gz | 89.6 MB | EMDB map data format | |
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Header (meta data) | emd-41161-v30.xml emd-41161.xml | 14.8 KB 14.8 KB | Display Display | EMDB header |
Images | emd_41161.png | 19.1 KB | ||
Others | emd_41161_additional_1.map.gz emd_41161_half_map_1.map.gz emd_41161_half_map_2.map.gz | 156.3 MB 165.4 MB 165.4 MB | ||
Archive directory | http://ftp.pdbj.org/pub/emdb/structures/EMD-41161 ftp://ftp.pdbj.org/pub/emdb/structures/EMD-41161 | HTTPS FTP |
-Related structure data
-Links
EMDB pages | EMDB (EBI/PDBe) / EMDataResource |
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-Map
File | Download / File: emd_41161.map.gz / Format: CCP4 / Size: 178 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) | ||||||||||||||||||||
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Annotation | gH base local refinement map for HCMV Trimer in complex with CS2it1p2_F7K Fab and CS4tt1p1_E3K Fab | ||||||||||||||||||||
Voxel size | X=Y=Z: 0.94 Å | ||||||||||||||||||||
Density |
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Symmetry | Space group: 1 | ||||||||||||||||||||
Details | EMDB XML:
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-Supplemental data
-Additional map: gH base local refinement sharpened map for HCMV...
File | emd_41161_additional_1.map | ||||||||||||
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Annotation | gH base local refinement sharpened map for HCMV Trimer in complex with CS2it1p2_F7K Fab and CS4tt1p1_E3K Fab | ||||||||||||
Projections & Slices |
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Density Histograms |
-Half map: gH base local refinement half map A for...
File | emd_41161_half_map_1.map | ||||||||||||
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Annotation | gH base local refinement half map A for HCMV Trimer in complex with CS2it1p2_F7K Fab and CS4tt1p1_E3K Fab | ||||||||||||
Projections & Slices |
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Density Histograms |
-Half map: gH base local refinement half map B for...
File | emd_41161_half_map_2.map | ||||||||||||
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Annotation | gH base local refinement half map B for HCMV Trimer in complex with CS2it1p2_F7K Fab and CS4tt1p1_E3K Fab | ||||||||||||
Projections & Slices |
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Density Histograms |
-Sample components
-Entire : HCMV Trimer in complex with CS2it1p2_F7K Fab and CS4tt1p1_E3K Fab
Entire | Name: HCMV Trimer in complex with CS2it1p2_F7K Fab and CS4tt1p1_E3K Fab |
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Components |
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-Supramolecule #1: HCMV Trimer in complex with CS2it1p2_F7K Fab and CS4tt1p1_E3K Fab
Supramolecule | Name: HCMV Trimer in complex with CS2it1p2_F7K Fab and CS4tt1p1_E3K Fab type: complex / ID: 1 / Parent: 0 |
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-Supramolecule #2: HCMV Trimer
Supramolecule | Name: HCMV Trimer / type: complex / ID: 2 / Parent: 1 |
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Source (natural) | Organism: Human betaherpesvirus 5 |
-Supramolecule #3: CS2it1p2_F7K Fab and CS4tt1p1_E3K Fab
Supramolecule | Name: CS2it1p2_F7K Fab and CS4tt1p1_E3K Fab / type: complex / ID: 3 / Parent: 1 |
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Source (natural) | Organism: Homo sapiens (human) |
-Experimental details
-Structure determination
Method | cryo EM |
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Processing | single particle reconstruction |
Aggregation state | particle |
-Sample preparation
Buffer | pH: 8 |
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Vitrification | Cryogen name: ETHANE |
-Electron microscopy
Microscope | TFS GLACIOS |
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Electron beam | Acceleration voltage: 200 kV / Electron source: FIELD EMISSION GUN |
Electron optics | Illumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELDBright-field microscopy / Nominal defocus max: 2.2 µm / Nominal defocus min: 0.8 µm |
Image recording | Film or detector model: FEI FALCON IV (4k x 4k) / Average electron dose: 49.0 e/Å2 |
-Image processing
Startup model | Type of model: PDB ENTRY PDB model - PDB ID: |
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Initial angle assignment | Type: RANDOM ASSIGNMENT |
Final angle assignment | Type: MAXIMUM LIKELIHOOD |
Final reconstruction | Resolution.type: BY AUTHOR / Resolution: 3.0 Å / Resolution method: FSC 0.143 CUT-OFF / Number images used: 376687 |