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Yorodumi- PDB-1fl3: CRYSTAL STRUCTURE OF THE BLUE FLUORESCENT ANTIBODY (19G2) IN COMP... -
+Open data
-Basic information
Entry | Database: PDB / ID: 1fl3 | ||||||
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Title | CRYSTAL STRUCTURE OF THE BLUE FLUORESCENT ANTIBODY (19G2) IN COMPLEX WITH STILBENE HAPTEN AT 277K | ||||||
Components |
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Keywords | IMMUNE SYSTEM / immunoglobulin fold | ||||||
Function / homology | Function and homology information Initial triggering of complement / Classical antibody-mediated complement activation / FCGR activation / Role of phospholipids in phagocytosis / Regulation of Complement cascade / Regulation of actin dynamics for phagocytic cup formation / humoral immune response mediated by circulating immunoglobulin / phagocytosis, recognition / positive regulation of type IIa hypersensitivity / positive regulation of type I hypersensitivity ...Initial triggering of complement / Classical antibody-mediated complement activation / FCGR activation / Role of phospholipids in phagocytosis / Regulation of Complement cascade / Regulation of actin dynamics for phagocytic cup formation / humoral immune response mediated by circulating immunoglobulin / phagocytosis, recognition / positive regulation of type IIa hypersensitivity / positive regulation of type I hypersensitivity / Fc-gamma receptor I complex binding / phagocytosis, engulfment / immunoglobulin complex, circulating / IgG immunoglobulin complex / immunoglobulin receptor binding / immunoglobulin mediated immune response / positive regulation of phagocytosis / complement activation, classical pathway / antigen binding / B cell differentiation / positive regulation of immune response / antibacterial humoral response / extracellular space / extracellular region / plasma membrane Similarity search - Function | ||||||
Biological species | Mus musculus (house mouse) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / Resolution: 2.45 Å | ||||||
Authors | Stevens, R.C. / Beuscher IV, A.E. | ||||||
Citation | Journal: Science / Year: 2000 Title: Blue-fluorescent antibodies. Authors: Simeonov, A. / Matsushita, M. / Juban, E.A. / Thompson, E.H. / Hoffman, T.Z. / Beuscher IV, A.E. / Taylor, M.J. / Wirsching, P. / Rettig, W. / McCusker, J.K. / Stevens, R.C. / Millar, D.P. / ...Authors: Simeonov, A. / Matsushita, M. / Juban, E.A. / Thompson, E.H. / Hoffman, T.Z. / Beuscher IV, A.E. / Taylor, M.J. / Wirsching, P. / Rettig, W. / McCusker, J.K. / Stevens, R.C. / Millar, D.P. / Schultz, P.G. / Lerner, R.A. / Janda, K.D. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1fl3.cif.gz | 156.6 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1fl3.ent.gz | 131.5 KB | Display | PDB format |
PDBx/mmJSON format | 1fl3.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/fl/1fl3 ftp://data.pdbj.org/pub/pdb/validation_reports/fl/1fl3 | 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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2 |
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Unit cell |
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-Components
#1: Antibody | Mass: 21957.736 Da / Num. of mol.: 2 / Fragment: FAB FRAGMENT / Source method: isolated from a natural source / Source: (natural) Mus musculus (house mouse) / References: UniProt: P01867*PLUS #2: Antibody | Mass: 23323.854 Da / Num. of mol.: 2 / Fragment: FAB FRAGMENT / Source method: isolated from a natural source / Source: (natural) Mus musculus (house mouse) / References: UniProt: P01837*PLUS #3: Chemical | #4: Water | ChemComp-HOH / | |
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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: 2.8 Å3/Da / Density % sol: 56.02 % |
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Crystal grow | Temperature: 277 K / Method: vapor diffusion, hanging drop / pH: 5 Details: PEG4000, magnesium chloride, sodium citrate, methionine, pH 5.0, VAPOR DIFFUSION, HANGING DROP, temperature 277K |
Crystal grow | *PLUS Method: unknown |
-Data collection
Diffraction | Mean temperature: 277 K |
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Diffraction source | Source: SYNCHROTRON / Site: SSRL / Beamline: BL9-2 / Wavelength: 1 |
Detector | Type: ADSC / Detector: CCD / Date: Mar 31, 2000 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1 Å / Relative weight: 1 |
Reflection | Resolution: 2.42→99 Å / Num. all: 36035 / Num. obs: 36035 / Observed criterion σ(F): -2 / Observed criterion σ(I): 0 / Redundancy: 2.5 % / Biso Wilson estimate: 9 Å2 / Rmerge(I) obs: 0.038 / Net I/σ(I): 29 |
Reflection shell | Resolution: 2.42→2.51 Å / Redundancy: 2.1 % / Rmerge(I) obs: 0.295 / Num. unique all: 2648 / % possible all: 70 |
-Processing
Software |
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Refinement | Resolution: 2.45→20 Å / σ(F): 0 / σ(I): 0 Stereochemistry target values: maximum likelihood target using amplitudes
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Refinement step | Cycle: LAST / Resolution: 2.45→20 Å
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