+Open data
-Basic information
Entry | Database: PDB / ID: 1fnl | ||||||
---|---|---|---|---|---|---|---|
Title | CRYSTAL STRUCTURE OF THE EXTRACELLULAR DOMAIN OF A HUMAN FCGRIII | ||||||
Components | LOW AFFINITY IMMUNOGLOBULIN GAMMA FC REGION RECEPTOR III-B | ||||||
Keywords | IMMUNE SYSTEM RECEPTOR / BETA SANDWICH / IMMUNOGLOBULIN-LIKE / RECEPTOR | ||||||
Function / homology | Function and homology information GPI anchor binding / IgG receptor activity / Post-translational modification: synthesis of GPI-anchored proteins / IgG binding / antibody-dependent cellular cytotoxicity / secretory granule membrane / cell surface receptor signaling pathway / immune response / external side of plasma membrane / Neutrophil degranulation ...GPI anchor binding / IgG receptor activity / Post-translational modification: synthesis of GPI-anchored proteins / IgG binding / antibody-dependent cellular cytotoxicity / secretory granule membrane / cell surface receptor signaling pathway / immune response / external side of plasma membrane / Neutrophil degranulation / extracellular exosome / extracellular region / plasma membrane Similarity search - Function | ||||||
Biological species | Homo sapiens (human) | ||||||
Method | X-RAY DIFFRACTION / Resolution: 1.8 Å | ||||||
Authors | Zhang, Y. / Boesen, C.C. / Radaev, S. / Brooks, A.G. / Fridman, W.H. / Sautes-Fridman, C. / Sun, P.D. | ||||||
Citation | Journal: Immunity / Year: 2000 Title: Crystal structure of the extracellular domain of a human Fc gamma RIII. Authors: Zhang, Y. / Boesen, C.C. / Radaev, S. / Brooks, A.G. / Fridman, W.H. / Sautes-Fridman, C. / Sun, P.D. | ||||||
History |
|
-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
---|
-Downloads & links
-Download
PDBx/mmCIF format | 1fnl.cif.gz | 48.6 KB | Display | PDBx/mmCIF format |
---|---|---|---|---|
PDB format | pdb1fnl.ent.gz | 37.5 KB | Display | PDB format |
PDBx/mmJSON format | 1fnl.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 1fnl_validation.pdf.gz | 363.4 KB | Display | wwPDB validaton report |
---|---|---|---|---|
Full document | 1fnl_full_validation.pdf.gz | 364.8 KB | Display | |
Data in XML | 1fnl_validation.xml.gz | 5.1 KB | Display | |
Data in CIF | 1fnl_validation.cif.gz | 8.4 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/fn/1fnl ftp://data.pdbj.org/pub/pdb/validation_reports/fn/1fnl | HTTPS FTP |
-Related structure data
Similar structure data |
---|
-Links
-Assembly
Deposited unit |
| ||||||||
---|---|---|---|---|---|---|---|---|---|
1 |
| ||||||||
Unit cell |
| ||||||||
Details | The biological assembly is a monomer |
-Components
#1: Protein | Mass: 20004.285 Da / Num. of mol.: 1 / Fragment: EXTRACELLULAR LIGAND BINDING DOMAIN Source method: isolated from a genetically manipulated source Source: (gene. exp.) Homo sapiens (human) / Plasmid: PET30 / Production host: Escherichia coli (E. coli) / References: UniProt: O75015 | ||
---|---|---|---|
#2: Chemical | #3: Water | ChemComp-HOH / | |
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
---|
-Sample preparation
Crystal | Density Matthews: 2.62 Å3/Da / Density % sol: 53.12 % | ||||||||||||||||||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Crystal grow | Temperature: 298 K / Method: evaporation / pH: 6.5 Details: PEG 8000, Sodium Hepes, pH 6.5, EVAPORATION, temperature 298.0K | ||||||||||||||||||||||||||||||||||||
Crystal grow | *PLUS pH: 8 / Method: vapor diffusion, hanging drop | ||||||||||||||||||||||||||||||||||||
Components of the solutions | *PLUS
|
-Data collection
Diffraction | Mean temperature: 100 K |
---|---|
Diffraction source | Source: ROTATING ANODE / Type: RIGAKU / Wavelength: 1.54 |
Detector | Type: RIGAKU RAXIS IV / Detector: IMAGE PLATE / Date: Mar 10, 2000 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.54 Å / Relative weight: 1 |
Reflection | Resolution: 1.8→20 Å / Num. obs: 36093 / % possible obs: 95.8 % / Observed criterion σ(F): 0 / Observed criterion σ(I): -3 / Redundancy: 3.2 % / Biso Wilson estimate: 20.8 Å2 / Rmerge(I) obs: 0.054 / Net I/σ(I): 29.5 |
Reflection shell | Resolution: 1.8→1.86 Å / Redundancy: 2 % / Rmerge(I) obs: 0.21 / Num. unique all: 3033 / % possible all: 80.1 |
Reflection | *PLUS Num. obs: 36180 |
Reflection shell | *PLUS % possible obs: 80.1 % / Mean I/σ(I) obs: 6.9 |
-Processing
Software |
| ||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Refinement | Resolution: 1.8→20 Å / σ(F): 0 / σ(I): 0 / Stereochemistry target values: Engh & Huber
| ||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 1.8→20 Å
| ||||||||||||||||||||
Refine LS restraints |
| ||||||||||||||||||||
Software | *PLUS Name: CNS / Version: 0.9 / Classification: refinement | ||||||||||||||||||||
Refinement | *PLUS Highest resolution: 1.8 Å / Lowest resolution: 20 Å / σ(F): 0 / % reflection Rfree: 5 % / Rfactor obs: 0.184 | ||||||||||||||||||||
Solvent computation | *PLUS | ||||||||||||||||||||
Displacement parameters | *PLUS Biso mean: 24.1 Å2 | ||||||||||||||||||||
Refine LS restraints | *PLUS
|