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Yorodumi- PDB-1fg9: 3:1 COMPLEX OF INTERFERON-GAMMA RECEPTOR WITH INTERFERON-GAMMA DIMER -
+Open data
-Basic information
Entry | Database: PDB / ID: 1fg9 | ||||||
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Title | 3:1 COMPLEX OF INTERFERON-GAMMA RECEPTOR WITH INTERFERON-GAMMA DIMER | ||||||
Components |
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Keywords | IMMUNE SYSTEM / cytokine-receptor complex / fibronectin type-III | ||||||
Function / homology | Function and homology information type II interferon receptor activity / positive regulation of fructose 1,6-bisphosphate 1-phosphatase activity / positive regulation of iron ion import across plasma membrane / positive regulation of fructose 1,6-bisphosphate metabolic process / positive regulation of tumor necrosis factor (ligand) superfamily member 11 production / type II interferon receptor binding / negative regulation of tau-protein kinase activity / positive regulation of CD4-positive, CD25-positive, alpha-beta regulatory T cell differentiation involved in immune response / positive regulation of NMDA glutamate receptor activity / : ...type II interferon receptor activity / positive regulation of fructose 1,6-bisphosphate 1-phosphatase activity / positive regulation of iron ion import across plasma membrane / positive regulation of fructose 1,6-bisphosphate metabolic process / positive regulation of tumor necrosis factor (ligand) superfamily member 11 production / type II interferon receptor binding / negative regulation of tau-protein kinase activity / positive regulation of CD4-positive, CD25-positive, alpha-beta regulatory T cell differentiation involved in immune response / positive regulation of NMDA glutamate receptor activity / : / positive regulation of vitamin D biosynthetic process / positive regulation of interleukin-23 production / positive regulation of peptidyl-serine phosphorylation of STAT protein / negative regulation of amyloid-beta clearance / positive regulation of cellular respiration / positive regulation of smooth muscle cell apoptotic process / positive regulation of calcidiol 1-monooxygenase activity / positive regulation of protein deacetylation / RUNX1 and FOXP3 control the development of regulatory T lymphocytes (Tregs) / type III interferon-mediated signaling pathway / positive regulation of core promoter binding / neuroinflammatory response / positive regulation of exosomal secretion / macrophage activation involved in immune response / positive regulation of killing of cells of another organism / negative regulation of interleukin-17 production / positive regulation of membrane protein ectodomain proteolysis / positive regulation of osteoclast differentiation / positive regulation of MHC class II biosynthetic process / positive regulation of signaling receptor activity / cytokine receptor activity / positive regulation of neurogenesis / negative regulation of epithelial cell differentiation / IFNG signaling activates MAPKs / positive regulation of amyloid-beta formation / positive regulation of epithelial cell migration / cytokine binding / positive regulation of nitric-oxide synthase biosynthetic process / cell surface receptor signaling pathway via JAK-STAT / regulation of insulin secretion / humoral immune response / macrophage differentiation / positive regulation of phagocytosis / positive regulation of autophagy / type II interferon-mediated signaling pathway / Regulation of IFNG signaling / extrinsic apoptotic signaling pathway / positive regulation of chemokine production / positive regulation of tyrosine phosphorylation of STAT protein / Gene and protein expression by JAK-STAT signaling after Interleukin-12 stimulation / positive regulation of interleukin-12 production / positive regulation of glycolytic process / positive regulation of interleukin-1 beta production / cytokine activity / negative regulation of smooth muscle cell proliferation / astrocyte activation / positive regulation of cytokine production / positive regulation of protein-containing complex assembly / positive regulation of protein localization to plasma membrane / microglial cell activation / response to virus / positive regulation of protein serine/threonine kinase activity / cellular response to virus / positive regulation of inflammatory response / positive regulation of interleukin-6 production / positive regulation of protein import into nucleus / cytokine-mediated signaling pathway / positive regulation of nitric oxide biosynthetic process / Interferon gamma signaling / positive regulation of tumor necrosis factor production / defense response to virus / Potential therapeutics for SARS / adaptive immune response / cell surface receptor signaling pathway / negative regulation of gene expression / negative regulation of DNA-templated transcription / apoptotic process / positive regulation of cell population proliferation / positive regulation of gene expression / negative regulation of transcription by RNA polymerase II / signal transduction / extracellular space / extracellular region / membrane / plasma membrane Similarity search - Function | ||||||
Biological species | Homo sapiens (human) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / Resolution: 2.9 Å | ||||||
Authors | Thiel, D.J. / le Du, M.-H. / Walter, R.L. / D'Arcy, A. / Chene, C. / Fountoulakis, M. / Garotta, G. / Winkler, F.K. / Ealick, S.E. | ||||||
Citation | Journal: Structure Fold.Des. / Year: 2000 Title: Observation of an unexpected third receptor molecule in the crystal structure of human interferon-gamma receptor complex. Authors: Thiel, D.J. / le Du, M.H. / Walter, R.L. / D'Arcy, A. / Chene, C. / Fountoulakis, M. / Garotta, G. / Winkler, F.K. / Ealick, S.E. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1fg9.cif.gz | 175.5 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1fg9.ent.gz | 144.1 KB | Display | PDB format |
PDBx/mmJSON format | 1fg9.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/fg/1fg9 ftp://data.pdbj.org/pub/pdb/validation_reports/fg/1fg9 | 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: 15730.941 Da / Num. of mol.: 2 / Fragment: 10 C-TERMINAL RESIDUES DELETED Source method: isolated from a genetically manipulated source Source: (gene. exp.) Homo sapiens (human) / Production host: Escherichia coli (E. coli) / References: UniProt: P01579 #2: Protein | Mass: 27649.396 Da / Num. of mol.: 3 / Fragment: EXTRACELLULAR DOMAIN Source method: isolated from a genetically manipulated source Source: (gene. exp.) Homo sapiens (human) / Cell line (production host): SF9 INSECT CELLS / Production host: unidentified baculovirus / References: UniProt: P15260 |
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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: 3.33 Å3/Da / Density % sol: 63.03 % | |||||||||||||||
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Crystal grow | Temperature: 298 K / Method: vapor diffusion, hanging drop / pH: 7 Details: 12.5% PEG 8000, TRIS, pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 298K | |||||||||||||||
Crystal | *PLUS Density % sol: 61 % | |||||||||||||||
Crystal grow | *PLUS | |||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction |
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Detector |
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Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray | |||||||||||||||
Radiation wavelength |
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Reflection | Resolution: 2.9→45 Å / Num. all: 33105 / Num. obs: 33105 / % possible obs: 80.1 % / Redundancy: 5.3 % / Rmerge(I) obs: 0.056 | |||||||||||||||
Reflection | *PLUS Num. measured all: 176010 |
-Processing
Software |
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Refinement | Resolution: 2.9→6 Å / Rfactor Rfree: 0.302 / Rfactor Rwork: 0.237 | ||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.9→6 Å
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Refine LS restraints |
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Software | *PLUS Name: X-PLOR / Classification: refinement | ||||||||||||
Refinement | *PLUS Highest resolution: 2.9 Å / Lowest resolution: 6 Å / Rfactor obs: 0.237 | ||||||||||||
Solvent computation | *PLUS | ||||||||||||
Displacement parameters | *PLUS | ||||||||||||
Refine LS restraints | *PLUS
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