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Yorodumi- PDB-8ki7: Structure of Tomato spotted wilt virus L protein contained endoH ... -
+Open data
-Basic information
Entry | Database: PDB / ID: 8ki7 | ||||||
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Title | Structure of Tomato spotted wilt virus L protein contained endoH domain binding to 3'5'vRNA | ||||||
Components |
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Keywords | VIRAL PROTEIN/RNA / Tomato spotted wilt virus / L protein / VIRAL PROTEIN / VIRAL PROTEIN-RNA complex | ||||||
Function / homology | Function and homology information RNA-directed RNA polymerase / viral RNA genome replication / RNA-dependent RNA polymerase activity / DNA-templated transcription Similarity search - Function | ||||||
Biological species | Tomato spotted wilt virus synthetic construct (others) | ||||||
Method | ELECTRON MICROSCOPY / single particle reconstruction / cryo EM / Resolution: 3.7 Å | ||||||
Authors | Cao, L. / Wang, X. | ||||||
Funding support | 1items
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Citation | Journal: To Be Published Title: Structure of Tomato spotted wilt virus L protein Authors: Cao, L. / Wang, X. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 8ki7.cif.gz | 382.1 KB | Display | PDBx/mmCIF format |
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PDB format | pdb8ki7.ent.gz | 301.8 KB | Display | PDB format |
PDBx/mmJSON format | 8ki7.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 8ki7_validation.pdf.gz | 1.3 MB | Display | wwPDB validaton report |
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Full document | 8ki7_full_validation.pdf.gz | 1.3 MB | Display | |
Data in XML | 8ki7_validation.xml.gz | 62.3 KB | Display | |
Data in CIF | 8ki7_validation.cif.gz | 92.6 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/ki/8ki7 ftp://data.pdbj.org/pub/pdb/validation_reports/ki/8ki7 | HTTPS FTP |
-Related structure data
Related structure data | 37253MC M: map data used to model this data C: citing same article (ref.) |
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Similar structure data | Similarity search - Function & homologyF&H Search |
-Links
-Assembly
Deposited unit |
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1 |
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-Components
#1: Protein | Mass: 240378.375 Da / Num. of mol.: 1 / Fragment: endoH domain Source method: isolated from a genetically manipulated source Source: (gene. exp.) Tomato spotted wilt virus (strain Bulgarian L3) Strain: Bulgarian L3 / Production host: Spodoptera frugiperda (fall armyworm) References: UniProt: A0A7G8JUQ9, RNA-directed RNA polymerase |
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#2: RNA chain | Mass: 3208.012 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) synthetic construct (others) |
#3: RNA chain | Mass: 2894.807 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) synthetic construct (others) |
#4: RNA chain | Mass: 4055.421 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) synthetic construct (others) |
-Experimental details
-Experiment
Experiment | Method: ELECTRON MICROSCOPY |
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EM experiment | Aggregation state: PARTICLE / 3D reconstruction method: single particle reconstruction |
-Sample preparation
Component | Name: Structure of Tomato spotted wilt virus L protein contained endoH domain binding to 3'5'vRNA Type: COMPLEX / Entity ID: all / Source: MULTIPLE SOURCES |
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Source (natural) | Organism: Tomato spotted wilt virus (strain Bulgarian L3) |
Source (recombinant) | Organism: Spodoptera frugiperda (fall armyworm) |
Buffer solution | pH: 7.5 |
Specimen | Embedding applied: NO / Shadowing applied: NO / Staining applied: NO / Vitrification applied: YES |
Vitrification | Cryogen name: ETHANE |
-Electron microscopy imaging
Microscopy | Model: FEI TITAN |
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Electron gun | Electron source: FIELD EMISSION GUN / Accelerating voltage: 300 kV / Illumination mode: FLOOD BEAM |
Electron lens | Mode: BRIGHT FIELD / Nominal defocus max: 1800 nm / Nominal defocus min: 1200 nm |
Image recording | Electron dose: 60 e/Å2 / Film or detector model: GATAN K2 QUANTUM (4k x 4k) |
-Processing
CTF correction | Type: PHASE FLIPPING AND AMPLITUDE CORRECTION | ||||||||||||||||||||||||
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3D reconstruction | Resolution: 3.7 Å / Resolution method: FSC 0.143 CUT-OFF / Num. of particles: 156980 / Symmetry type: POINT | ||||||||||||||||||||||||
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