+Open data
-Basic information
Entry | Database: PDB / ID: 1h9v | ||||||
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Title | Human Fc-gamma-Receptor IIa (FcgRIIa), monoclinic | ||||||
Components | LOW AFFINITY IMMUNOGLOBULIN GAMMA FC RECEPTOR II-A | ||||||
Keywords | IMMUNE SYSTEM / MEMBRANE PROTEIN / FCR / FC-RECEPTOR / IMMUNOGLOBULIN / FCGR / FC-GAMMA-R | ||||||
Function / homology | Function and homology information IgG binding / immune system process / FCGR activation / regulation of immune response / Role of phospholipids in phagocytosis / FCGR3A-mediated IL10 synthesis / secretory granule membrane / Regulation of actin dynamics for phagocytic cup formation / transmembrane signaling receptor activity / cell surface receptor signaling pathway ...IgG binding / immune system process / FCGR activation / regulation of immune response / Role of phospholipids in phagocytosis / FCGR3A-mediated IL10 synthesis / secretory granule membrane / Regulation of actin dynamics for phagocytic cup formation / transmembrane signaling receptor activity / cell surface receptor signaling pathway / Neutrophil degranulation / plasma membrane Similarity search - Function | ||||||
Biological species | HOMO SAPIENS (human) | ||||||
Method | X-RAY DIFFRACTION / MOLECULAR REPLACEMENT / Resolution: 3 Å | ||||||
Authors | Sondermann, P. / Kaiser, J. / Jacob, U. | ||||||
Citation | Journal: J.Mol.Biol. / Year: 2001 Title: Molecular Basis for Immune Complex Recognition: A Comparison of Fc-Receptor Structures Authors: Sondermann, P. / Kaiser, J. / Jacob, U. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1h9v.cif.gz | 45.6 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1h9v.ent.gz | 32 KB | Display | PDB format |
PDBx/mmJSON format | 1h9v.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/h9/1h9v ftp://data.pdbj.org/pub/pdb/validation_reports/h9/1h9v | HTTPS FTP |
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-Related structure data
Related structure data | 2fcbS S: Starting model for refinement |
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Similar 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: 19342.645 Da / Num. of mol.: 1 / Fragment: IMMUNOGLOBULIN G BINDING DOMAIN RESIDUE 5-177 Source method: isolated from a genetically manipulated source Source: (gene. exp.) HOMO SAPIENS (human) / Description: REFOLDED FROM INCLUSION BODIES / Cellular location: EXTRACELLULARGlossary of biology / Variant: HIGH RESPONDER / Plasmid: PET / Cellular location (production host): INCLUSION BODIES / Production host: ESCHERICHIA COLI (E. coli) / Strain (production host): BL21(DE3) / References: UniProt: P12318 |
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Compound details | BINDS TO THE FC REGION OF IMMUNOGLOB |
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
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-Sample preparation
Crystal | Density Matthews: 2.29 Å3/Da / Density % sol: 46 % | ||||||||||||||||||||||||||||||||||||
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Crystal grow | pH: 5.5 / Details: 0.2M NAOAC PH 4.6, 26% PEG 8000 | ||||||||||||||||||||||||||||||||||||
Crystal grow | *PLUS Temperature: 20 ℃ / pH: 7.2 / Method: vapor diffusion, sitting drop | ||||||||||||||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Mean temperature: 291 K |
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Diffraction source | Source: ROTATING ANODE / Type: RIGAKU RU200 / Wavelength: 1.5418 |
Detector | Type: MARRESEARCH / Detector: IMAGE PLATE / Date: Mar 15, 2000 |
Radiation | Monochromator: NI FILTER / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.5418 Å / Relative weight: 1 |
Reflection | Resolution: 3→50 Å / Num. obs: 3417 / % possible obs: 90.5 % / Observed criterion σ(I): 2 / Redundancy: 2.4 % |
Reflection | *PLUS Rmerge(I) obs: 0.111 |
Reflection shell | *PLUS % possible obs: 69 % / Rmerge(I) obs: 0.242 |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT Starting model: 2FCB Highest resolution: 3 Å / R Free selection details: RANDOM / Isotropic thermal model: RESTRAINED / Cross valid method: THROUGHOUT / Details: ONE REFINEMENT CYCLE WAS CARRIED OUT ON THE MODEL | ||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Highest resolution: 3 Å
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Refine LS restraints |
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Software | *PLUS Name: CNS / Version: 1 / Classification: refinement | ||||||||||||||||||||||||||||||||||||||||
Refinement | *PLUS Lowest resolution: 50 Å / % reflection Rfree: 5 % / Rfactor obs: 0.246 / Rfactor Rfree: 0.327 | ||||||||||||||||||||||||||||||||||||||||
Solvent computation | *PLUS | ||||||||||||||||||||||||||||||||||||||||
Displacement parameters | *PLUS |