+Open data
-Basic information
Entry | Database: EMDB / ID: EMD-38913 | |||||||||
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Title | Focus refinement map of PSII-CAC | |||||||||
Map data | Focus refinement map of 6CAC of PSII-CAC from Rhodomonas salina | |||||||||
Sample |
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Keywords | Photosystem II associated with CAC antenna from Rhodomonas Salina / PHOTOSYNTHESIS | |||||||||
Biological species | Rhodomonas salina (eukaryote) | |||||||||
Method | single particle reconstruction / cryo EM / Resolution: 2.9 Å | |||||||||
Authors | Si L / Li M | |||||||||
Funding support | China, 1 items
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Citation | Journal: To Be Published Title: Structure of inactive Photosystem II associated with CAC antenna from Rhodomonas Salina Authors: Si L / Li M | |||||||||
History |
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-Structure visualization
Supplemental images |
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-Downloads & links
-EMDB archive
Map data | emd_38913.map.gz | 15.5 MB | EMDB map data format | |
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Header (meta data) | emd-38913-v30.xml emd-38913.xml | 11.6 KB 11.6 KB | Display Display | EMDB header |
Images | emd_38913.png | 35.7 KB | ||
Filedesc metadata | emd-38913.cif.gz | 3.9 KB | ||
Others | emd_38913_half_map_1.map.gz emd_38913_half_map_2.map.gz | 218.5 MB 218.7 MB | ||
Archive directory | http://ftp.pdbj.org/pub/emdb/structures/EMD-38913 ftp://ftp.pdbj.org/pub/emdb/structures/EMD-38913 | HTTPS FTP |
-Validation report
Summary document | emd_38913_validation.pdf.gz | 703.4 KB | Display | EMDB validaton report |
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Full document | emd_38913_full_validation.pdf.gz | 703 KB | Display | |
Data in XML | emd_38913_validation.xml.gz | 15.9 KB | Display | |
Data in CIF | emd_38913_validation.cif.gz | 19.1 KB | Display | |
Arichive directory | https://ftp.pdbj.org/pub/emdb/validation_reports/EMD-38913 ftp://ftp.pdbj.org/pub/emdb/validation_reports/EMD-38913 | HTTPS FTP |
-Related structure data
-Links
EMDB pages | EMDB (EBI/PDBe) / EMDataResource |
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-Map
File | Download / File: emd_38913.map.gz / Format: CCP4 / Size: 274.6 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) | ||||||||||||||||||||||||||||||||||||
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Annotation | Focus refinement map of 6CAC of PSII-CAC from Rhodomonas salina | ||||||||||||||||||||||||||||||||||||
Projections & slices | Image control
Images are generated by Spider. | ||||||||||||||||||||||||||||||||||||
Voxel size | X=Y=Z: 1.04003 Å | ||||||||||||||||||||||||||||||||||||
Density |
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Symmetry | Space group: 1 | ||||||||||||||||||||||||||||||||||||
Details | EMDB XML:
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-Supplemental data
-Half map: #1
File | emd_38913_half_map_1.map | ||||||||||||
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Projections & Slices |
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Density Histograms |
-Half map: #2
File | emd_38913_half_map_2.map | ||||||||||||
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Projections & Slices |
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Density Histograms |
-Sample components
-Entire : Inactive Photosystem II associated with chlorophyll a/c binding p...
Entire | Name: Inactive Photosystem II associated with chlorophyll a/c binding protein |
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Components |
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-Supramolecule #1: Inactive Photosystem II associated with chlorophyll a/c binding p...
Supramolecule | Name: Inactive Photosystem II associated with chlorophyll a/c binding protein type: complex / ID: 1 / Parent: 0 / Macromolecule list: all |
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Source (natural) | Organism: Rhodomonas salina (eukaryote) |
-Macromolecule #1: CAC antenna
Macromolecule | Name: CAC antenna / type: other / ID: 1 / Classification: other |
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Source (natural) | Organism: Rhodomonas salina (eukaryote) |
Sequence | String: NO |
-Experimental details
-Structure determination
Method | cryo EM |
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Processing | single particle reconstruction |
Aggregation state | 3D array |
-Sample preparation
Buffer | pH: 7.5 |
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Vitrification | Cryogen name: ETHANE |
-Electron microscopy
Microscope | FEI TITAN |
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Image recording | Film or detector model: DIRECT ELECTRON DE-16 (4k x 4k) / Average electron dose: 60.0 e/Å2 |
Electron beam | Acceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN |
Electron optics | Illumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD / Nominal defocus max: 2.2 µm / Nominal defocus min: 1.2 µm |
-Image processing
Startup model | Type of model: PDB ENTRY PDB model - PDB ID: |
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Final reconstruction | Resolution.type: BY AUTHOR / Resolution: 2.9 Å / Resolution method: FSC 0.143 CUT-OFF / Number images used: 123227 |
Initial angle assignment | Type: ANGULAR RECONSTITUTION |
Final angle assignment | Type: ANGULAR RECONSTITUTION |