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Yorodumi- EMDB-17014: Consensus map of HSV-1 DNA polymerase-processivity factor complex... -
+Open data
-Basic information
Entry | Database: EMDB / ID: EMD-17014 | |||||||||
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Title | Consensus map of HSV-1 DNA polymerase-processivity factor complex in pre-translocation state | |||||||||
Map data | ||||||||||
Sample |
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Keywords | DNA / Polymerase / Complex / TRANSFERASE | |||||||||
Biological species | Human alphaherpesvirus 1 strain KOS | |||||||||
Method | single particle reconstruction / cryo EM / Resolution: 2.41 Å | |||||||||
Authors | Gustavsson E / Grunewald K / Elias P / Hallberg M | |||||||||
Funding support | Sweden, Germany, 2 items
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Citation | Journal: To Be Published Title: Trapped functional states of HSV-1 DNA polymerase-processivity facot complex by cryo-EM Authors: Gustavsson E / Grunewald K / Elias P / Hallberg M | |||||||||
History |
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-Structure visualization
Supplemental images |
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-Downloads & links
-EMDB archive
Map data | emd_17014.map.gz | 52.1 MB | EMDB map data format | |
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Header (meta data) | emd-17014-v30.xml emd-17014.xml | 15.3 KB 15.3 KB | Display Display | EMDB header |
FSC (resolution estimation) | emd_17014_fsc.xml | 9.8 KB | Display | FSC data file |
Images | emd_17014.png | 67.3 KB | ||
Masks | emd_17014_msk_1.map | 103 MB | Mask map | |
Filedesc metadata | emd-17014.cif.gz | 4.2 KB | ||
Others | emd_17014_half_map_1.map.gz emd_17014_half_map_2.map.gz | 95.5 MB 95.5 MB | ||
Archive directory | http://ftp.pdbj.org/pub/emdb/structures/EMD-17014 ftp://ftp.pdbj.org/pub/emdb/structures/EMD-17014 | HTTPS FTP |
-Related structure data
-Links
EMDB pages | EMDB (EBI/PDBe) / EMDataResource |
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-Map
File | Download / File: emd_17014.map.gz / Format: CCP4 / Size: 103 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) | ||||||||||||||||||||||||||||||||||||
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Projections & slices | Image control
Images are generated by Spider. | ||||||||||||||||||||||||||||||||||||
Voxel size | X=Y=Z: 1.01 Å | ||||||||||||||||||||||||||||||||||||
Density |
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Symmetry | Space group: 1 | ||||||||||||||||||||||||||||||||||||
Details | EMDB XML:
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-Supplemental data
-Mask #1
File | emd_17014_msk_1.map | ||||||||||||
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Projections & Slices |
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Density Histograms |
-Half map: #1
File | emd_17014_half_map_1.map | ||||||||||||
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Projections & Slices |
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Density Histograms |
-Half map: #2
File | emd_17014_half_map_2.map | ||||||||||||
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Projections & Slices |
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Density Histograms |
-Sample components
-Entire : HSV-1 DNA polymerase-processivity factor in pre-translocation state
Entire | Name: HSV-1 DNA polymerase-processivity factor in pre-translocation state |
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Components |
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-Supramolecule #1: HSV-1 DNA polymerase-processivity factor in pre-translocation state
Supramolecule | Name: HSV-1 DNA polymerase-processivity factor in pre-translocation state type: complex / ID: 1 / Parent: 0 |
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Source (natural) | Organism: Human alphaherpesvirus 1 strain KOS |
-Experimental details
-Structure determination
Method | cryo EM |
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Processing | single particle reconstruction |
Aggregation state | particle |
-Sample preparation
Concentration | 0.4 mg/mL | |||||||||||||||
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Buffer | pH: 7.8 Component:
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Grid | Model: UltrAuFoil R1.2/1.3 / Material: GOLD / Mesh: 300 / Support film - Material: GOLD / Support film - topology: HOLEY / Pretreatment - Type: GLOW DISCHARGE / Pretreatment - Time: 120 sec. | |||||||||||||||
Vitrification | Cryogen name: ETHANE-PROPANE / Chamber humidity: 95 % / Chamber temperature: 277 K |
-Electron microscopy
Microscope | FEI TITAN KRIOS |
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Electron beam | Acceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN |
Electron optics | C2 aperture diameter: 70.0 µm / Illumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELDBright-field microscopy / Cs: 2.7 mm / Nominal defocus max: 1.5 µm / Nominal defocus min: 0.5 µm / Nominal magnification: 165000 |
Sample stage | Specimen holder model: FEI TITAN KRIOS AUTOGRID HOLDER / Cooling holder cryogen: NITROGEN |
Image recording | Film or detector model: GATAN K3 BIOQUANTUM (6k x 4k) / Average electron dose: 58.0 e/Å2 |
Experimental equipment | Model: Titan Krios / Image courtesy: FEI Company |