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Yorodumi- PDB-8fuq: Crystal structure of rabies virus (strain CVS-11) P3 dimerization... -
+Open data
-Basic information
Entry | Database: PDB / ID: 8fuq | ||||||
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Title | Crystal structure of rabies virus (strain CVS-11) P3 dimerization domain | ||||||
Components | Phosphoprotein | ||||||
Keywords | VIRAL PROTEIN / rabies / phosphoprotein / lyssavirus / chaperone | ||||||
Function / homology | Function and homology information microtubule-dependent intracellular transport of viral material towards nucleus / viral transcription / symbiont-mediated suppression of host JAK-STAT cascade via inhibition of STAT2 activity / symbiont-mediated suppression of host JAK-STAT cascade via inhibition of STAT1 activity / virion component / host cell cytoplasm / symbiont-mediated suppression of host type I interferon-mediated signaling pathway / symbiont entry into host cell / RNA-dependent RNA polymerase activity / host cell nucleus Similarity search - Function | ||||||
Biological species | Lyssavirus rabies | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 1.8 Å | ||||||
Authors | Donnelly, C.M. / Cross, E.M. / Forwood, J.K. | ||||||
Funding support | 1items
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Citation | Journal: To Be Published Title: Crystal structure of rabies virus (strain CVS-11) P3 dimerization domain Authors: Donnelly, C.M. / Cross, E.M. / Forwood, J.K. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 8fuq.cif.gz | 197.2 KB | Display | PDBx/mmCIF format |
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PDB format | pdb8fuq.ent.gz | 152 KB | Display | PDB format |
PDBx/mmJSON format | 8fuq.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/fu/8fuq ftp://data.pdbj.org/pub/pdb/validation_reports/fu/8fuq | HTTPS FTP |
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-Related structure data
Similar structure data | Similarity search - Function & homologyF&H Search |
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-Links
-Assembly
Deposited unit |
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1 |
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2 |
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3 |
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Unit cell |
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Components on special symmetry positions |
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-Components
#1: Protein | Mass: 13737.184 Da / Num. of mol.: 6 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Lyssavirus rabies / Strain: CVS-11 / Production host: Escherichia coli BL21(DE3) (bacteria) / References: UniProt: P15198 #2: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
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-Sample preparation
Crystal | Density Matthews: 0.99 Å3/Da / Density % sol: 54.62 % |
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Crystal grow | Temperature: 293 K / Method: vapor diffusion, hanging drop / pH: 6.5 Details: 0.2 M Sodium nitrate, 0.1 M Bis-Tris propane, 20 % w/v PEG 3350 |
-Data collection
Diffraction | Mean temperature: 100 K / Serial crystal experiment: N |
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Diffraction source | Source: SYNCHROTRON / Site: Australian Synchrotron / Beamline: MX2 / Wavelength: 0.9537 Å |
Detector | Type: DECTRIS EIGER2 S 16M / Detector: PIXEL / Date: Sep 15, 2020 |
Radiation | Monochromator: M / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.9537 Å / Relative weight: 1 |
Reflection | Resolution: 1.8→52.53 Å / Num. obs: 30167 / % possible obs: 99.9 % / Redundancy: 3.6 % / Biso Wilson estimate: 24.21 Å2 / CC1/2: 0.989 / Rmerge(I) obs: 0.156 / Net I/σ(I): 2.9 |
Reflection shell | Resolution: 1.8→1.84 Å / Rmerge(I) obs: 1.521 / Mean I/σ(I) obs: 0.4 / Num. unique obs: 1797 / CC1/2: 0.248 / Rpim(I) all: 2.753 |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT / Resolution: 1.8→52.51 Å / SU ML: 0.2774 / Cross valid method: FREE R-VALUE / σ(F): 1.33 / Phase error: 26.5342 Stereochemistry target values: GeoStd + Monomer Library + CDL v1.2
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Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.1 Å / Solvent model: FLAT BULK SOLVENT MODEL | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 31.76 Å2 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 1.8→52.51 Å
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Refine LS restraints |
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LS refinement shell |
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