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Yorodumi- PDB-1bog: ANTI-P24 (HIV-1) FAB FRAGMENT CB41 COMPLEXED WITH AN EPITOPE-HOMO... -
+Open data
-Basic information
Entry | Database: PDB / ID: 1bog | ||||||
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Title | ANTI-P24 (HIV-1) FAB FRAGMENT CB41 COMPLEXED WITH AN EPITOPE-HOMOLOGOUS PEPTIDE | ||||||
Components |
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Keywords | COMPLEX (ANTIBODY/PEPTIDE) / POLYSPECIFICITY / CROSS REACTIVITY / FAB-FRAGMENT / HIV-1 / COMPLEX (ANTIBODY-PEPTIDE) / COMPLEX (ANTIBODY-PEPTIDE) complex | ||||||
Function / homology | Function and homology information immunoglobulin complex, circulating / immunoglobulin receptor binding / complement activation, classical pathway / antigen binding / antibacterial humoral response Similarity search - Function | ||||||
Biological species | Mus musculus (house mouse) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 2.6 Å | ||||||
Authors | Keitel, T. / Kramer, A. / Wessner, H. / Scholz, C. / Schneider-Mergener, J. / Hoehne, W. | ||||||
Citation | Journal: Cell(Cambridge,Mass.) / Year: 1997 Title: Crystallographic analysis of anti-p24 (HIV-1) monoclonal antibody cross-reactivity and polyspecificity. Authors: Keitel, T. / Kramer, A. / Wessner, H. / Scholz, C. / Schneider-Mergener, J. / Hohne, W. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1bog.cif.gz | 92.5 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1bog.ent.gz | 74.7 KB | Display | PDB format |
PDBx/mmJSON format | 1bog.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 1bog_validation.pdf.gz | 389 KB | Display | wwPDB validaton report |
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Full document | 1bog_full_validation.pdf.gz | 405.8 KB | Display | |
Data in XML | 1bog_validation.xml.gz | 11.9 KB | Display | |
Data in CIF | 1bog_validation.cif.gz | 17.6 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/bo/1bog ftp://data.pdbj.org/pub/pdb/validation_reports/bo/1bog | HTTPS FTP |
-Related structure data
Related structure data | 1cfnC 1cfqC 1cfsC 1cftC 1hi6C 2hfl S: Starting model for refinement C: citing same article (ref.) |
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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: Antibody | Mass: 23972.771 Da / Num. of mol.: 1 / Fragment: FAB FRAGMENT / Source method: isolated from a natural source / Details: FAB DERIVED FROM IGG2A KAPPA / Source: (natural) Mus musculus (house mouse) / Cell line: CB 4-1-1-F6 B-CELL HYBRIDOMA / Strain: BALB-C / References: GenBank: 387371 |
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#2: Antibody | Mass: 22669.508 Da / Num. of mol.: 1 / Fragment: FAB FRAGMENT / Source method: isolated from a natural source / Details: FAB DERIVED FROM IGG2A KAPPA / Source: (natural) Mus musculus (house mouse) / Cell line: CB 4/1/1/F6 B-CELL HYBRIDOMA / Strain: BALB/C / References: UniProt: P01864 |
#3: Protein/peptide | Mass: 1186.292 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source |
#4: Water | ChemComp-HOH / |
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
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-Sample preparation
Crystal | Density Matthews: 4.8 Å3/Da / Density % sol: 71 % | ||||||||||||||||||||||||||||||
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Crystal grow | pH: 7.5 / Details: pH 7.5 | ||||||||||||||||||||||||||||||
Crystal grow | *PLUS Method: vapor diffusion, hanging drop | ||||||||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Mean temperature: 288 K |
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Diffraction source | Source: SYNCHROTRON / Site: EMBL/DESY, HAMBURG / Beamline: X11 / Wavelength: 0.918 |
Detector | Type: MARRESEARCH / Detector: IMAGE PLATE / Date: Oct 1, 1995 / Details: BENT MIRROR |
Radiation | Monochromator: GE(111) / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.918 Å / Relative weight: 1 |
Reflection | Resolution: 2.6→91 Å / Num. obs: 30270 / % possible obs: 96 % / Observed criterion σ(I): 2 / Redundancy: 5.5 % / Biso Wilson estimate: 42 Å2 / Rmerge(I) obs: 0.076 |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT Starting model: PDB ENTRY 2HFL 2hfl Resolution: 2.6→91 Å / Cross valid method: THROUGHOUT / σ(F): 2
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Refinement step | Cycle: LAST / Resolution: 2.6→91 Å
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Refine LS restraints |
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Software | *PLUS Name: REFMAC / Classification: refinement | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement | *PLUS Rfactor obs: 0.246 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Solvent computation | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | *PLUS |