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- PDB-1etz: THE THREE-DIMENSIONAL STRUCTURE OF AN ANTI-SWEETENER FAB, NC10.14... -
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Open data
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Basic information
Entry | Database: PDB / ID: 1etz | ||||||
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Title | THE THREE-DIMENSIONAL STRUCTURE OF AN ANTI-SWEETENER FAB, NC10.14, SHOWS THE EXTENT OF STRUCTURAL DIVERSITY IN ANTIGEN RECOGNITION BY IMMUNOGLOBULINS | ||||||
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![]() | IMMUNE SYSTEM / Anti-sweetener Fab / Antigen-antibody / Complex / Receptor Mimicry / Antigen Recognition | ||||||
Function / homology | ![]() 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 / phagocytosis, engulfment / immunoglobulin mediated immune response / immunoglobulin complex, circulating / immunoglobulin receptor binding / positive regulation of phagocytosis / complement activation, classical pathway / antigen binding / positive regulation of immune response / antibacterial humoral response / extracellular space / extracellular region / plasma membrane Similarity search - Function | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() | ||||||
![]() | Guddat, L.W. / Shan, L. / Broomell, C. / Ramsland, P.A. / Fan, Z. / Anchin, J.M. / Linthicum, D.S. / Edmundson, A.B. | ||||||
![]() | ![]() Title: The three-dimensional structure of a complex of a murine Fab (NC10. 14) with a potent sweetener (NC174): an illustration of structural diversity in antigen recognition by immunoglobulins. Authors: Guddat, L.W. / Shan, L. / Broomell, C. / Ramsland, P.A. / Fan, Z. / Anchin, J.M. / Linthicum, D.S. / Edmundson, A.B. #1: ![]() Title: Local and Transmitted Conformational Changes on Complexation of an Anti-sweetener Fab Authors: Guddat, L.W. / Shan, L. / Anchin, J.M. / Linthicum, D.S. / Edmundson, A.B. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 173.2 KB | Display | ![]() |
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PDB format | ![]() | 144.2 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Arichive directory | ![]() ![]() | HTTPS FTP |
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-Related structure data
Related structure data | |
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Similar structure data |
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Links
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Assembly
Deposited unit | ![]()
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1 | ![]()
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2 | ![]()
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Unit cell |
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Details | A Fab is formed by Light Chain and Heavy Chain. There are two Fab with non-crystallographic symmetry in a unit cell. |
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Components
#1: Antibody | Mass: 23165.719 Da / Num. of mol.: 2 / Source method: isolated from a natural source / Source: (natural) ![]() ![]() #2: Antibody | Mass: 24468.146 Da / Num. of mol.: 2 / Source method: isolated from a natural source / Source: (natural) ![]() ![]() #3: Chemical | #4: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.6 Å3/Da / Density % sol: 52.6 % | ||||||||||||||||||||||||||||||
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Crystal grow | Temperature: 290 K / Method: vapor diffusion, hanging drop / pH: 7 Details: NC10.14 Fab with excess molarity NC174, 10%(w/v) PEG 8000, 0.05M NaCl, 0.05%(w/v) Sodium Azide, VAPOR DIFFUSION, HANGING DROP, temperature 290K | ||||||||||||||||||||||||||||||
Crystal | *PLUS Density % sol: 50.2 % | ||||||||||||||||||||||||||||||
Crystal grow | *PLUS Method: unknown | ||||||||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Mean temperature: 293 K |
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Diffraction source | Source: ![]() |
Detector | Type: SIEMENS / Detector: AREA DETECTOR / Date: Jul 9, 1993 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.5418 Å / Relative weight: 1 |
Reflection | Resolution: 2.6→10 Å / Num. all: 26144 / Num. obs: 26144 / % possible obs: 90.3 % / Observed criterion σ(F): 1 / Observed criterion σ(I): 1 / Redundancy: 3.9 % / Biso Wilson estimate: 38.5 Å2 / Rmerge(I) obs: 0.073 / Net I/σ(I): 16.2 |
Reflection shell | Resolution: 2.6→2.72 Å / Redundancy: 3.3 % / Rmerge(I) obs: 0.125 / Num. unique all: 2420 / % possible all: 66.8 |
Reflection | *PLUS Num. measured all: 101821 |
Reflection shell | *PLUS % possible obs: 66.8 % |
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Processing
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Refinement | Resolution: 2.6→10 Å / σ(F): 1 / σ(I): 1 / Stereochemistry target values: Engh & Huber
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Refinement step | Cycle: LAST / Resolution: 2.6→10 Å
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Refine LS restraints |
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Software | *PLUS Name: ![]() | |||||||||||||||||||||||||
Refinement | *PLUS | |||||||||||||||||||||||||
Solvent computation | *PLUS | |||||||||||||||||||||||||
Displacement parameters | *PLUS Biso mean: 14.3 Å2 | |||||||||||||||||||||||||
Refine LS restraints | *PLUS
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