+Open data
-Basic information
Entry | Database: PDB / ID: 8hw5 | ||||||
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Title | Crystal structure of African swine fever virus CP312R | ||||||
Components | CP312R | ||||||
Keywords | VIRAL PROTEIN / CP312R / African swine fever virus | ||||||
Function / homology | ACETIC ACID / CP312R Function and homology information | ||||||
Biological species | African swine fever virus | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 2.3 Å | ||||||
Authors | Wang, W.M. / Wang, Z.Y. / Fu, D. / Guo, Y. | ||||||
Funding support | China, 1items
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Citation | Journal: To Be Published Title: African swine fever virus CP312R is essential for virus replication and inhibits host protein expression by interacting with RPS27A Authors: Hagoss, Y.T. / Shen, D.D. / Wang, W.M. / Guo, Y. / Bu, Z.G. / Zhao, D.M. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 8hw5.cif.gz | 125.3 KB | Display | PDBx/mmCIF format |
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PDB format | pdb8hw5.ent.gz | 95.6 KB | Display | PDB format |
PDBx/mmJSON format | 8hw5.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 8hw5_validation.pdf.gz | 1.2 MB | Display | wwPDB validaton report |
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Full document | 8hw5_full_validation.pdf.gz | 1.2 MB | Display | |
Data in XML | 8hw5_validation.xml.gz | 13.4 KB | Display | |
Data in CIF | 8hw5_validation.cif.gz | 18.4 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/hw/8hw5 ftp://data.pdbj.org/pub/pdb/validation_reports/hw/8hw5 | HTTPS FTP |
-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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Unit cell |
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-Components
#1: Protein | Mass: 31538.459 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) African swine fever virus / Gene: CP312R CDS, CP312R, ASFV-Georgia_4-120 / Production host: Escherichia coli (E. coli) / References: UniProt: A0A2X0RVH4 | ||||
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#2: Chemical | ChemComp-ACY / #3: Water | ChemComp-HOH / | Has ligand of interest | Y | |
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
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-Sample preparation
Crystal | Density Matthews: 2.48 Å3/Da / Density % sol: 50.36 % |
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Crystal grow | Temperature: 289 K / Method: vapor diffusion, sitting drop / Details: magnesium chloride BIS-TRIS PEG 3350 |
-Data collection
Diffraction | Mean temperature: 100 K / Serial crystal experiment: N | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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Diffraction source | Source: SYNCHROTRON / Site: SSRF / Beamline: BL10U2 / Wavelength: 0.9785 Å | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Detector | Type: DECTRIS PILATUS 6M / Detector: PIXEL / Date: Nov 14, 2021 | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Radiation wavelength | Wavelength: 0.9785 Å / Relative weight: 1 | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Reflection | Resolution: 2.3→50 Å / Num. obs: 13790 / % possible obs: 98.8 % / Redundancy: 3.2 % / Rmerge(I) obs: 0.992 / Χ2: 0.053 / Net I/σ(I): 12.8 / Num. measured all: 85579 | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Reflection shell |
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-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT Starting model: AlphaFold Resolution: 2.3→24.07 Å / SU ML: 0.23 / Cross valid method: FREE R-VALUE / σ(F): 1.38 / Phase error: 24.15 / Stereochemistry target values: ML
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Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.11 Å / Solvent model: FLAT BULK SOLVENT MODEL | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.3→24.07 Å
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Refine LS restraints |
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LS refinement shell |
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Refinement TLS params. | Method: refined / Origin x: 0.4168 Å / Origin y: -0.9292 Å / Origin z: 12.7149 Å
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Refinement TLS group | Selection details: all |