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Yorodumi- PDB-1dba: THREE-DIMENSIONAL STRUCTURE OF AN ANTI-STEROID FAB' AND PROGESTER... -
+Open data
-Basic information
Entry | Database: PDB / ID: 1dba | ||||||
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Title | THREE-DIMENSIONAL STRUCTURE OF AN ANTI-STEROID FAB' AND PROGESTERONE-FAB' COMPLEX | ||||||
Components |
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Keywords | IMMUNOGLOBULIN | ||||||
Function / homology | Function and homology information humoral immune response mediated by circulating immunoglobulin / phagocytosis, recognition / positive regulation of type IIa hypersensitivity / positive regulation of type I hypersensitivity / antibody-dependent cellular cytotoxicity / Fc-gamma receptor I complex binding / phagocytosis, engulfment / immunoglobulin complex, circulating / IgG immunoglobulin complex / immunoglobulin receptor binding ...humoral immune response mediated by circulating immunoglobulin / phagocytosis, recognition / positive regulation of type IIa hypersensitivity / positive regulation of type I hypersensitivity / antibody-dependent cellular cytotoxicity / 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 / defense response to bacterium / external side of plasma membrane / extracellular space / plasma membrane / cytoplasm Similarity search - Function | ||||||
Biological species | Mus musculus (house mouse) | ||||||
Method | X-RAY DIFFRACTION / Resolution: 2.8 Å | ||||||
Authors | Arevalo, J.H. / Wilson, I.A. | ||||||
Citation | Journal: J.Mol.Biol. / Year: 1993 Title: Three-dimensional structure of an anti-steroid Fab' and progesterone-Fab' complex. Authors: Arevalo, J.H. / Stura, E.A. / Taussig, M.J. / Wilson, I.A. #1: Journal: Immunology / Year: 1987 Title: Analysis of an Anti-Progesterone Antibody: Variable Crystal Morphology of the Fab' and Steroid-Fab' Complexes Authors: Stura, E.A. / Arevalo, J.H. / Feinstein, A. / Heap, R.B. / Taussig, M.J. / Wilson, I.A. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1dba.cif.gz | 92.5 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1dba.ent.gz | 74.3 KB | Display | PDB format |
PDBx/mmJSON format | 1dba.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/db/1dba ftp://data.pdbj.org/pub/pdb/validation_reports/db/1dba | HTTPS FTP |
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-Related structure data
-Links
-Assembly
Deposited unit |
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1 |
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Unit cell |
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Atom site foot note | 1: CIS PROLINE - PRO L 8 / 2: CIS PROLINE - PRO L 95 / 3: CIS PROLINE - PRO L 141 / 4: CIS PROLINE - PRO H 149 / 5: CIS PROLINE - PRO H 151 6: ARG H 200 - PRO H 202 OMEGA =324.89 PEPTIDE BOND DEVIATES SIGNIFICANTLY FROM TRANS CONFORMATION 7: PRO H 227 - ARG H 228 OMEGA =142.10 PEPTIDE BOND DEVIATES SIGNIFICANTLY FROM TRANS CONFORMATION |
-Components
#1: Antibody | Mass: 23880.588 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Mus musculus (house mouse) / Cell: HYBRIDOMA / References: GenBank: 1589925 | ||
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#2: Antibody | Mass: 23754.656 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Mus musculus (house mouse) / Cell: HYBRIDOMA / References: UniProt: P01868 | ||
#3: Chemical | Sequence details | THE SEQUENCE SUPPLIED IS THAT OF THE AUTHORS AND IT IS DESCRIBED IN REFERENCE 1 ABOVE. | |
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION |
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-Sample preparation
Crystal | Density Matthews: 3.42 Å3/Da / Density % sol: 63.99 % | |||||||||||||||||||||||||
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Crystal grow | *PLUS Temperature: 22 ℃ / pH: 7.4 / Method: vapor diffusion | |||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Radiation | Scattering type: x-ray |
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Radiation wavelength | Relative weight: 1 |
Reflection | *PLUS Highest resolution: 2.8 Å / Lowest resolution: 6 Å / Num. obs: 17193 / % possible obs: 90 % / Rmerge(I) obs: 0.099 / Biso Wilson estimate: 24.2 Å2 |
-Processing
Software |
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Refinement | Resolution: 2.8→6 Å / σ(F): 2 /
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Refinement step | Cycle: LAST / Resolution: 2.8→6 Å
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Refine LS restraints |
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Refinement | *PLUS Highest resolution: 2.8 Å / Lowest resolution: 6 Å / Num. reflection obs: 17193 / σ(F): 2 / Rfactor obs: 0.202 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Solvent computation | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine LS restraints | *PLUS
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