+Open data
-Basic information
Entry | Database: PDB / ID: 6j62 | |||||||||
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Title | Crystal structure of mISG15/NS1B complex | |||||||||
Components |
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Keywords | ANTIVIRAL PROTEIN / Complex / Antiviral | |||||||||
Function / homology | Function and homology information positive regulation of protein oligomerization / Termination of translesion DNA synthesis / ISG15 antiviral mechanism / ISG15-protein conjugation / PKR-mediated signaling / regulation of type II interferon production / symbiont-mediated suppression of host PKR/eIFalpha signaling / protein localization to mitochondrion / protein serine/threonine kinase inhibitor activity / response to type I interferon ...positive regulation of protein oligomerization / Termination of translesion DNA synthesis / ISG15 antiviral mechanism / ISG15-protein conjugation / PKR-mediated signaling / regulation of type II interferon production / symbiont-mediated suppression of host PKR/eIFalpha signaling / protein localization to mitochondrion / protein serine/threonine kinase inhibitor activity / response to type I interferon / negative regulation of type I interferon-mediated signaling pathway / negative regulation of viral genome replication / positive regulation of interleukin-10 production / polyubiquitin modification-dependent protein binding / positive regulation of bone mineralization / negative regulation of protein ubiquitination / positive regulation of interferon-beta production / positive regulation of erythrocyte differentiation / integrin-mediated signaling pathway / response to bacterium / response to virus / modification-dependent protein catabolic process / protein tag activity / positive regulation of type II interferon production / integrin binding / symbiont-mediated suppression of host ISG15-protein conjugation / ubiquitin-dependent protein catabolic process / defense response to virus / host cell cytoplasm / symbiont-mediated suppression of host type I interferon-mediated signaling pathway / defense response to bacterium / ubiquitin protein ligase binding / host cell nucleus / RNA binding / extracellular region / cytosol Similarity search - Function | |||||||||
Biological species | Mus musculus (house mouse) Influenza B virus | |||||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 2.486 Å | |||||||||
Authors | Jiang, Y.N. / Wang, X.Q. | |||||||||
Funding support | China, 2items
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Citation | Journal: To Be Published Title: Crystal structure of mISG15/NS1B complex Authors: Jiang, Y.N. / Wang, X.Q. | |||||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 6j62.cif.gz | 111.4 KB | Display | PDBx/mmCIF format |
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PDB format | pdb6j62.ent.gz | 86.1 KB | Display | PDB format |
PDBx/mmJSON format | 6j62.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/j6/6j62 ftp://data.pdbj.org/pub/pdb/validation_reports/j6/6j62 | HTTPS FTP |
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-Related structure data
Similar structure data |
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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: 17273.984 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Mus musculus (house mouse) / Gene: Isg15 / Production host: Escherichia coli BL21(DE3) (bacteria) / Strain (production host): BL21(DE3) / References: UniProt: Q64339 |
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#2: Protein | Mass: 11881.639 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Influenza B virus (strain B/Lee/1940) / Strain: B/Lee/1940 / Gene: NS / Production host: Escherichia coli BL21(DE3) (bacteria) / Strain (production host): BL21(DE3) / References: UniProt: P03502 |
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
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-Sample preparation
Crystal | Density Matthews: 2.49 Å3/Da / Density % sol: 50.6 % |
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Crystal grow | Temperature: 291 K / Method: vapor diffusion, hanging drop Details: 0.1M magnesium chloride, 0.1M Na-HEPES, pH 7.0, 13 %(w/v) PEG 4000. |
-Data collection
Diffraction | Mean temperature: 100 K / Serial crystal experiment: N |
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Diffraction source | Source: SYNCHROTRON / Site: SSRF / Beamline: BL17U / Wavelength: 0.98 Å |
Detector | Type: ADSC QUANTUM 315r / Detector: CCD / Date: Mar 15, 2018 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.98 Å / Relative weight: 1 |
Reflection | Resolution: 2.48→35.58 Å / Num. obs: 10221 / % possible obs: 98 % / Redundancy: 8.3 % / Net I/σ(I): 14.4 |
Reflection shell | Resolution: 2.48→2.57 Å |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT / Resolution: 2.486→35.58 Å / SU ML: 0.44 / Cross valid method: FREE R-VALUE / σ(F): 1.34 / Phase error: 37.12
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Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.11 Å | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.486→35.58 Å
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Refine LS restraints |
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LS refinement shell |
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Refinement TLS params. | Method: refined / Refine-ID: X-RAY DIFFRACTION
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Refinement TLS group |
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