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Yorodumi- PDB-7x6s: lymphocytic choriomeningitis virus RNA-dependent RNA polymerase (... -
+Open data
-Basic information
Entry | Database: PDB / ID: 7x6s | ||||||
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Title | lymphocytic choriomeningitis virus RNA-dependent RNA polymerase (LCMV-L protein) | ||||||
Components | RNA-directed RNA polymerase L | ||||||
Keywords | TRANSFERASE / L protein / monomer / RdRp / NSFERASE | ||||||
Function / homology | Function and homology information negative stranded viral RNA replication / cap snatching / virion component / host cell cytoplasm / Hydrolases; Acting on ester bonds / hydrolase activity / RNA-directed RNA polymerase / RNA-dependent RNA polymerase activity / nucleotide binding / metal ion binding Similarity search - Function | ||||||
Biological species | Lymphocytic choriomeningitis virus | ||||||
Method | ELECTRON MICROSCOPY / single particle reconstruction / cryo EM / Resolution: 3.4 Å | ||||||
Authors | Liu, L. / Lou, Z. | ||||||
Funding support | China, 1items
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Citation | Journal: Protein Cell / Year: 2023 Title: Structure basis for allosteric regulation of lymphocytic choriomeningitis virus polymerase function by Z matrix protein. Authors: Lu Liu / Panpan Wang / Aijun Liu / Leike Zhang / Liming Yan / Yu Guo / Gengfu Xiao / Zihe Rao / Zhiyong Lou / | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 7x6s.cif.gz | 278.3 KB | Display | PDBx/mmCIF format |
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PDB format | pdb7x6s.ent.gz | 206.4 KB | Display | PDB format |
PDBx/mmJSON format | 7x6s.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 7x6s_validation.pdf.gz | 1.4 MB | Display | wwPDB validaton report |
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Full document | 7x6s_full_validation.pdf.gz | 1.4 MB | Display | |
Data in XML | 7x6s_validation.xml.gz | 49.6 KB | Display | |
Data in CIF | 7x6s_validation.cif.gz | 73.4 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/x6/7x6s ftp://data.pdbj.org/pub/pdb/validation_reports/x6/7x6s | HTTPS FTP |
-Related structure data
Related structure data | 33026MC 7x6vC 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: 254894.641 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Lymphocytic choriomeningitis virus (strain Armstrong) Strain: Armstrong / Production host: unidentified baculovirus / References: UniProt: A0A218M2D5 |
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#2: Chemical | ChemComp-MN / |
Has ligand of interest | Y |
-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: Lymphocytic choriomeningitis virus polymerase L protein Type: COMPLEX / Entity ID: #1 / Source: RECOMBINANT |
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Source (natural) | Organism: Lymphocytic choriomeningitis virus (strain Armstrong) |
Source (recombinant) | Organism: unidentified baculovirus |
Details of virus | Isolate: STRAIN / Type: VIRION |
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
Experimental equipment | Model: Titan Krios / Image courtesy: FEI Company |
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Microscopy | Model: FEI TITAN KRIOS |
Electron gun | Electron source: FIELD EMISSION GUN / Accelerating voltage: 300 kV / Illumination mode: OTHER |
Electron lens | Mode: BRIGHT FIELD / Nominal defocus max: 2500 nm / Nominal defocus min: 1500 nm |
Image recording | Electron dose: 1.3 e/Å2 / Detector mode: SUPER-RESOLUTION / Film or detector model: GATAN K2 SUMMIT (4k x 4k) |
-Processing
CTF correction | Type: PHASE FLIPPING ONLY | ||||||||||||||||||||||||
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3D reconstruction | Resolution: 3.4 Å / Resolution method: FSC 0.143 CUT-OFF / Num. of particles: 112276 / Symmetry type: POINT | ||||||||||||||||||||||||
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