+Open data
-Basic information
Entry | Database: PDB / ID: 4g1t | ||||||
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Title | Crystal structure of interferon-stimulated gene 54 | ||||||
Components | Interferon-induced protein with tetratricopeptide repeats 2 | ||||||
Keywords | ANTIVIRAL PROTEIN / ISG / all alpha helix / antivirus | ||||||
Function / homology | Function and homology information cellular response to interferon-alpha / type I interferon-mediated signaling pathway / apoptotic mitochondrial changes / negative regulation of protein binding / response to virus / Interferon alpha/beta signaling / defense response to virus / positive regulation of apoptotic process / endoplasmic reticulum / RNA binding ...cellular response to interferon-alpha / type I interferon-mediated signaling pathway / apoptotic mitochondrial changes / negative regulation of protein binding / response to virus / Interferon alpha/beta signaling / defense response to virus / positive regulation of apoptotic process / endoplasmic reticulum / RNA binding / cytosol / cytoplasm Similarity search - Function | ||||||
Biological species | Homo sapiens (human) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / SAD / Resolution: 2.8 Å | ||||||
Authors | Yang, Z. / Liang, H. / Zhou, Q. / Li, Y. / Chen, H. / Ye, W. / Chen, D. / Fleming, J. / Shu, H. / Liu, Y. | ||||||
Citation | Journal: Cell Res. / Year: 2012 Title: Crystal structure of ISG54 reveals a novel RNA binding structure and potential functional mechanisms. Authors: Yang, Z. / Liang, H. / Zhou, Q. / Li, Y. / Chen, H. / Ye, W. / Chen, D. / Fleming, J. / Shu, H. / Liu, Y. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 4g1t.cif.gz | 177.7 KB | Display | PDBx/mmCIF format |
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PDB format | pdb4g1t.ent.gz | 141.7 KB | Display | PDB format |
PDBx/mmJSON format | 4g1t.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/g1/4g1t ftp://data.pdbj.org/pub/pdb/validation_reports/g1/4g1t | 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: 54730.242 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Homo sapiens (human) / Gene: IFIT2, G10P2, IFI54 / Production host: Escherichia coli (E. coli) / References: UniProt: P09913 #2: Water | ChemComp-HOH / | Sequence details | NATURAL VALIANT D -> E AT THIS POSITION | |
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-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 2 |
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-Sample preparation
Crystal | Density Matthews: 2.71 Å3/Da / Density % sol: 54.66 % |
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Crystal grow | Temperature: 289 K / Method: vapor diffusion, hanging drop / pH: 7.4 Details: PEG, pH 7.4, VAPOR DIFFUSION, HANGING DROP, temperature 289K |
-Data collection
Diffraction |
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Diffraction source |
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Detector |
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Radiation |
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Radiation wavelength |
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Reflection | Resolution: 2.8→40 Å / Num. all: 29758 / Num. obs: 29706 / % possible obs: 99 % / Observed criterion σ(F): 4.4 / Observed criterion σ(I): 121.7 / Biso Wilson estimate: 63.88 Å2 | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Reflection shell |
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-Processing
Software |
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Refinement | Method to determine structure: SAD / Resolution: 2.8→39.572 Å / Occupancy max: 1 / Occupancy min: 1 / FOM work R set: 0.7453 / SU ML: 0.41 / σ(F): 0 / Phase error: 31.12 / Stereochemistry target values: ML
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Solvent computation | Shrinkage radii: 0.95 Å / VDW probe radii: 1.2 Å / Solvent model: FLAT BULK SOLVENT MODEL / Bsol: 34.97 Å2 / ksol: 0.301 e/Å3 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso max: 172.71 Å2 / Biso mean: 70.293 Å2 / Biso min: 20 Å2
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Refinement step | Cycle: LAST / Resolution: 2.8→39.572 Å
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Refine LS restraints |
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LS refinement shell | Refine-ID: X-RAY DIFFRACTION / Total num. of bins used: 11
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