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Yorodumi- EMDB-29027: CryoEM structure of bacteriophage Q-beta coat protein dimer with ... -
+Open data
-Basic information
Entry | Database: EMDB / ID: EMD-29027 | |||||||||
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Title | CryoEM structure of bacteriophage Q-beta coat protein dimer with AYGG linker | |||||||||
Map data | Final map | |||||||||
Sample |
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Keywords | coat protein / q-beta / fusion / VIRUS LIKE PARTICLE | |||||||||
Function / homology | Read-through domain / Read-through domain / Levivirus coat protein / Levivirus coat protein / Bacteriophage RNA-type, capsid / viral capsid / structural molecule activity / Minor capsid protein A1 Function and homology information | |||||||||
Biological species | Qubevirus durum | |||||||||
Method | single particle reconstruction / cryo EM / Resolution: 3.28 Å | |||||||||
Authors | Newton TP / Zhao L / Finn MG / Kopylov M | |||||||||
Funding support | United States, 1 items
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Citation | Journal: To Be Published Title: CryoEM structure of bacteriophage Q-beta coat protein dimer with AYGG linker Authors: Newton TP / Zhao L / Kopylov M / Finn MG | |||||||||
History |
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-Structure visualization
Supplemental images |
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-Downloads & links
-EMDB archive
Map data | emd_29027.map.gz | 255 MB | EMDB map data format | |
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Header (meta data) | emd-29027-v30.xml emd-29027.xml | 13.8 KB 13.8 KB | Display Display | EMDB header |
FSC (resolution estimation) | emd_29027_fsc.xml | 16.9 KB | Display | FSC data file |
Images | emd_29027.png | 142.6 KB | ||
Masks | emd_29027_msk_1.map | 512 MB | Mask map | |
Filedesc metadata | emd-29027.cif.gz | 5.2 KB | ||
Others | emd_29027_half_map_1.map.gz emd_29027_half_map_2.map.gz | 475.6 MB 475.5 MB | ||
Archive directory | http://ftp.pdbj.org/pub/emdb/structures/EMD-29027 ftp://ftp.pdbj.org/pub/emdb/structures/EMD-29027 | HTTPS FTP |
-Related structure data
Related structure data | 8fehMC M: atomic model generated by this map C: citing same article (ref.) |
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Similar structure data | Similarity search - Function & homologyF&H Search |
-Links
EMDB pages | EMDB (EBI/PDBe) / EMDataResource |
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-Map
File | Download / File: emd_29027.map.gz / Format: CCP4 / Size: 512 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) | ||||||||||||||||||||
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Annotation | Final map | ||||||||||||||||||||
Voxel size | X=Y=Z: 0.855 Å | ||||||||||||||||||||
Density |
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Symmetry | Space group: 1 | ||||||||||||||||||||
Details | EMDB XML:
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-Supplemental data
-Mask #1
File | emd_29027_msk_1.map | ||||||||||||
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Projections & Slices |
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Density Histograms |
-Half map: Final half map A
File | emd_29027_half_map_1.map | ||||||||||||
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Annotation | Final half map A | ||||||||||||
Projections & Slices |
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Density Histograms |
-Half map: Final half map B
File | emd_29027_half_map_2.map | ||||||||||||
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Annotation | Final half map B | ||||||||||||
Projections & Slices |
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Density Histograms |
-Sample components
-Entire : Qubevirus durum
Entire | Name: Qubevirus durum |
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Components |
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-Supramolecule #1: Qubevirus durum
Supramolecule | Name: Qubevirus durum / type: virus / ID: 1 / Parent: 0 / Macromolecule list: all / NCBI-ID: 39803 / Sci species name: Qubevirus durum / Virus type: VIRUS-LIKE PARTICLE / Virus isolate: OTHER / Virus enveloped: No / Virus empty: Yes |
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-Macromolecule #1: Minor capsid protein A1 fusion
Macromolecule | Name: Minor capsid protein A1 fusion / type: protein_or_peptide / ID: 1 / Number of copies: 1 / Enantiomer: LEVO |
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Source (natural) | Organism: Qubevirus durum |
Molecular weight | Theoretical: 28.604137 KDa |
Recombinant expression | Organism: Escherichia coli (E. coli) |
Sequence | String: AKLETVTLGN IGKDGKQTLV LNPRGVNPTN GVASLSQAGA VPALEKRVTV SVSQPSRNRK NYKVQVKIQN PTACTANGSC DPSVTRQAY ADVTFSFTQY STDEERAFVR TELAALLASP LLIDAIDQLN PAYAYGGAKL ETVTLGNIGK DGKQTLVLNP R GVNPTNGV ...String: AKLETVTLGN IGKDGKQTLV LNPRGVNPTN GVASLSQAGA VPALEKRVTV SVSQPSRNRK NYKVQVKIQN PTACTANGSC DPSVTRQAY ADVTFSFTQY STDEERAFVR TELAALLASP LLIDAIDQLN PAYAYGGAKL ETVTLGNIGK DGKQTLVLNP R GVNPTNGV ASLSQAGAVP ALEKRVTVSV SQPSRNRKNY KVQVKIQNPT ACTANGSCDP SVTRQAYADV TFSFTQYSTD EE RAFVRTE LAALLASPLL IDAIDQLNPA Y UniProtKB: Minor capsid protein A1 |
-Experimental details
-Structure determination
Method | cryo EM |
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Processing | single particle reconstruction |
Aggregation state | particle |
-Sample preparation
Concentration | 1 mg/mL |
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Buffer | pH: 7.5 |
Vitrification | Cryogen name: ETHANE |
-Electron microscopy
Microscope | TFS KRIOS |
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Electron beam | Acceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN |
Electron optics | C2 aperture diameter: 100.0 µm / Illumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELDBright-field microscopy / Cs: 0.001 mm / Nominal defocus max: 2.0 µm / Nominal defocus min: 1.0 µm |
Image recording | Film or detector model: GATAN K2 SUMMIT (4k x 4k) / Detector mode: COUNTING / Digitization - Dimensions - Width: 3838 pixel / Digitization - Dimensions - Height: 3710 pixel / Average electron dose: 64.7 e/Å2 |
Experimental equipment | Model: Titan Krios / Image courtesy: FEI Company |