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Yorodumi- PDB-1uct: Crystal structure of the extracellular fragment of Fc alpha Recep... -
+Open data
-Basic information
Entry | Database: PDB / ID: 1uct | ||||||
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Title | Crystal structure of the extracellular fragment of Fc alpha Receptor I (CD89) | ||||||
Components | Immunoglobulin alpha Fc receptor | ||||||
Keywords | IMMUNE SYSTEM / beta stands | ||||||
Function / homology | Function and homology information IgA receptor activity / cellular response to interferon-alpha / Fc receptor signaling pathway / IgA binding / neutrophil activation / positive regulation of neutrophil apoptotic process / cellular response to granulocyte macrophage colony-stimulating factor stimulus / neutrophil mediated immunity / cellular response to interleukin-6 / tertiary granule membrane ...IgA receptor activity / cellular response to interferon-alpha / Fc receptor signaling pathway / IgA binding / neutrophil activation / positive regulation of neutrophil apoptotic process / cellular response to granulocyte macrophage colony-stimulating factor stimulus / neutrophil mediated immunity / cellular response to interleukin-6 / tertiary granule membrane / ficolin-1-rich granule membrane / specific granule membrane / cellular response to type II interferon / cellular response to tumor necrosis factor / cellular response to lipopolysaccharide / immune response / Neutrophil degranulation / extracellular region / plasma membrane Similarity search - Function | ||||||
Biological species | Homo sapiens (human) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MAD / Resolution: 2.1 Å | ||||||
Authors | Ding, Y. / Xu, G. / Yang, M. / Zhang, W. / Rao, Z. | ||||||
Citation | Journal: J.Biol.Chem. / Year: 2003 Title: Crystal Structure of the Ectodomain of Human Fc{alpha}RI. Authors: Ding, Y. / Xu, G. / Yang, M. / Yao, M. / Gao, G.F. / Zhang, W. / Rao, Z. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1uct.cif.gz | 51.3 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1uct.ent.gz | 36.4 KB | Display | PDB format |
PDBx/mmJSON format | 1uct.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/uc/1uct ftp://data.pdbj.org/pub/pdb/validation_reports/uc/1uct | 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: 25006.260 Da / Num. of mol.: 1 / Fragment: RESIDUES 0-217 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Homo sapiens (human) / Plasmid: pET28a / Production host: Escherichia coli (E. coli) / References: UniProt: P24071 |
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#2: 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: 2.45 Å3/Da / Density % sol: 49.35 % | |||||||||||||||||||||||||||||||||||||||||||||||||
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Crystal grow | Temperature: 291 K / Method: vapor diffusion, hanging drop / pH: 6 Details: PEG4000, sodium citrate, ethanol glycol, pH 6.0, VAPOR DIFFUSION, HANGING DROP, temperature 291K | |||||||||||||||||||||||||||||||||||||||||||||||||
Crystal grow | *PLUS pH: 7.6 / Method: vapor diffusion, hanging drop | |||||||||||||||||||||||||||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Mean temperature: 100 K | ||||||||||||
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Diffraction source | Source: SYNCHROTRON / Site: SPring-8 / Beamline: BL41XU / Wavelength: 0.9000, 0.9798, 0.9800 | ||||||||||||
Detector | Type: MARRESEARCH / Detector: CCD / Date: Mar 29, 2003 | ||||||||||||
Radiation | Protocol: MAD / Monochromatic (M) / Laue (L): M / Scattering type: x-ray | ||||||||||||
Radiation wavelength |
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Reflection | Resolution: 2.1→50 Å / Num. all: 95646 / Num. obs: 95481 / % possible obs: 99.8 % / Observed criterion σ(F): 2 / Observed criterion σ(I): 2 / Redundancy: 7.3 % / Rmerge(I) obs: 0.068 | ||||||||||||
Reflection shell | Resolution: 2.1→2.18 Å / % possible all: 99 | ||||||||||||
Reflection | *PLUS Num. obs: 13108 / % possible obs: 100 % / Num. measured all: 95489 / Rmerge(I) obs: 0.061 | ||||||||||||
Reflection shell | *PLUS % possible obs: 99.9 % / Redundancy: 7 % / Rmerge(I) obs: 0.234 / Mean I/σ(I) obs: 6.7 |
-Processing
Software |
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Refinement | Method to determine structure: MAD / Resolution: 2.1→40 Å / σ(F): 0 / Stereochemistry target values: Engh & Huber
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Refinement step | Cycle: LAST / Resolution: 2.1→40 Å
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Refine LS restraints |
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Refinement | *PLUS Lowest resolution: 40 Å / Rfactor Rwork: 0.21 | ||||||||||||||||||||
Solvent computation | *PLUS | ||||||||||||||||||||
Displacement parameters | *PLUS |