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Yorodumi- PDB-1tq6: Crystal Structure of IIGP1: a paradigm for interferon inducible p... -
+Open data
-Basic information
Entry | Database: PDB / ID: 1tq6 | ||||||
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Title | Crystal Structure of IIGP1: a paradigm for interferon inducible p47 resistance GTPases | ||||||
Components | interferon-inducible GTPase | ||||||
Keywords | SIGNALING PROTEIN / GTPase / Interferon gamma / dimer / immunology | ||||||
Function / homology | Function and homology information symbiont-containing vacuole membrane / Golgi cisterna membrane / defense response to protozoan / cellular response to interferon-beta / regulation of autophagy / response to bacterium / Hydrolases; Acting on acid anhydrides; Acting on GTP to facilitate cellular and subcellular movement / defense response / cytokine-mediated signaling pathway / GDP binding ...symbiont-containing vacuole membrane / Golgi cisterna membrane / defense response to protozoan / cellular response to interferon-beta / regulation of autophagy / response to bacterium / Hydrolases; Acting on acid anhydrides; Acting on GTP to facilitate cellular and subcellular movement / defense response / cytokine-mediated signaling pathway / GDP binding / nuclear membrane / defense response to Gram-negative bacterium / innate immune response / GTPase activity / GTP binding / endoplasmic reticulum membrane / identical protein binding / cytoplasm Similarity search - Function | ||||||
Biological species | Mus musculus (house mouse) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 2.7 Å | ||||||
Authors | Ghosh, A. / Uthaiah, R. / Howard, J. / Herrmann, C. / Wolf, E. | ||||||
Citation | Journal: Mol.Cell / Year: 2004 Title: Crystal Structure of IIGP1; A Paradigm for Interferon-Inducible p47 Resistance GTPases Authors: Ghosh, A. / Uthaiah, R. / Howard, J. / Herrmann, C. / Wolf, E. #1: Journal: J.Biol.Chem. / Year: 2003 Title: IIGP1, an interferon-gamma-inducible 47-kDa GTPase of the mouse, showing cooperative enzymatic activity and GTP-dependent multimerization Authors: Uthaiah, R.C. / Praefcke, G.J.K. / Howard, J.C. / Herrmann, C. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1tq6.cif.gz | 94.4 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1tq6.ent.gz | 75.4 KB | Display | PDB format |
PDBx/mmJSON format | 1tq6.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/tq/1tq6 ftp://data.pdbj.org/pub/pdb/validation_reports/tq/1tq6 | HTTPS FTP |
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-Related structure data
-Links
-Assembly
Deposited unit |
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1 |
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Unit cell |
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-Components
#1: Protein | Mass: 47570.395 Da / Num. of mol.: 1 / Mutation: M173A Source method: isolated from a genetically manipulated source Source: (gene. exp.) Mus musculus (house mouse) / Gene: IIGP1 / Plasmid: pGEX4T1 / Species (production host): Escherichia coli / Production host: Escherichia coli BL21(DE3) (bacteria) / Strain (production host): BL21(DE3) / References: UniProt: Q9QZ85 |
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#2: Chemical | ChemComp-MG / |
#3: Chemical | ChemComp-GNP / |
#4: Water | ChemComp-HOH / |
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
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-Sample preparation
Crystal | Density Matthews: 2.6 Å3/Da / Density % sol: 45 % |
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Crystal grow | Temperature: 293 K / Method: vapor diffusion / pH: 4.6 Details: PEG4000, NaOAc, pH 4.6, VAPOR DIFFUSION, temperature 293K |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: SYNCHROTRON / Site: ESRF / Beamline: ID14-2 / Wavelength: 0.933 Å |
Detector | Type: ADSC QUANTUM 4 / Detector: CCD / Date: Apr 27, 2004 |
Radiation | Monochromator: SAGITALLY FOCUSED Si / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.933 Å / Relative weight: 1 |
Reflection | Resolution: 2.7→30 Å / Num. all: 13671 / Num. obs: 13671 / % possible obs: 98.8 % / Observed criterion σ(F): 1 / Observed criterion σ(I): 1 / Rsym value: 0.071 / Net I/σ(I): 13 |
Reflection shell | Resolution: 2.7→2.75 Å / Mean I/σ(I) obs: 5.4 / Rsym value: 0.188 / % possible all: 90.1 |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT / Resolution: 2.7→20 Å / σ(F): 1 / Stereochemistry target values: Engh & Huber
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Refinement step | Cycle: LAST / Resolution: 2.7→20 Å
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Refine LS restraints |
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LS refinement shell | Highest resolution: 2.7 Å / Rfactor Rfree error: 0.16
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