+Open data
-Basic information
Entry | Database: PDB / ID: 2a77 | ||||||
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Title | Anti-Cocaine Antibody 7.5.21, Crystal Form II | ||||||
Components |
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Keywords | IMMUNE SYSTEM | ||||||
Function / homology | Immunoglobulins / Immunoglobulin-like / Sandwich / Mainly Beta Function and homology information | ||||||
Biological species | Mus musculus (house mouse) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 1.8 Å | ||||||
Authors | Pozharski, E. / Hewagama, A. / Shanafelt, A. / Ringe, D. / Petsko, G.A. | ||||||
Citation | Journal: To be Published Title: Flexibility of Packing: Four Crystal Forms of an Anti-Cocaine Antibody 7.5.21 Authors: Pozharski, E. / Hewagama, A. / Shanafelt, A. / Ringe, D. / Petsko, G.A. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 2a77.cif.gz | 108.6 KB | Display | PDBx/mmCIF format |
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PDB format | pdb2a77.ent.gz | 81.6 KB | Display | PDB format |
PDBx/mmJSON format | 2a77.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/a7/2a77 ftp://data.pdbj.org/pub/pdb/validation_reports/a7/2a77 | HTTPS FTP |
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-Related structure data
Related structure data | 2ai0C 2a1wS 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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2 |
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Unit cell |
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-Components
#1: Antibody | Mass: 23893.607 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Mus musculus (house mouse) / Cell line: hybridoma / Strain: BALB/C | ||||
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#2: Antibody | Mass: 23868.779 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Mus musculus (house mouse) / Cell line: hybridoma / Strain: BALB/C | ||||
#3: Chemical | ChemComp-SO4 / #4: Chemical | ChemComp-GOL / #5: Water | ChemComp-HOH / | |
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION |
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-Sample preparation
Crystal | Density Matthews: 2.7 Å3/Da / Density % sol: 54.7 % |
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Crystal grow | Temperature: 298 K / Method: vapor diffusion, hanging drop / pH: 7 Details: 16% PEG8000, 0.3M ammonium sulfate, pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 298K |
-Data collection
Diffraction | Mean temperature: 105 K |
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Diffraction source | Source: SYNCHROTRON / Site: SSRL / Beamline: BL11-1 / Wavelength: 0.89996 Å |
Detector | Type: ADSC QUANTUM 4 / Detector: CCD / Date: Jul 4, 2004 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.89996 Å / Relative weight: 1 |
Reflection | Resolution: 1.8→50 Å / Num. all: 46600 / Num. obs: 46600 / % possible obs: 97 % / Observed criterion σ(F): 0 / Redundancy: 4 % / Biso Wilson estimate: 33.3 Å2 / Rmerge(I) obs: 0.044 / Χ2: 1.124 / Net I/σ(I): 33 |
Reflection shell | Resolution: 1.8→1.86 Å / % possible obs: 87.2 % / Redundancy: 3.4 % / Mean I/σ(I) obs: 1.7 / Num. measured obs: 4182 / Num. unique all: 4182 / Χ2: 0.971 / % possible all: 87.2 |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT Starting model: PDB ENTRY 2A1W Resolution: 1.8→33.3 Å / Cor.coef. Fo:Fc: 0.948 / Cor.coef. Fo:Fc free: 0.926 / SU B: 8.041 / SU ML: 0.123 / TLS residual ADP flag: LIKELY RESIDUAL / Cross valid method: THROUGHOUT / σ(F): 0 / ESU R: 0.144 / ESU R Free: 0.142 / Stereochemistry target values: MAXIMUM LIKELIHOOD
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Solvent computation | Ion probe radii: 0.8 Å / Shrinkage radii: 0.8 Å / VDW probe radii: 1.2 Å / Solvent model: MASK | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 40.947 Å2
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Refinement step | Cycle: LAST / Resolution: 1.8→33.3 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 1.799→1.846 Å / Total num. of bins used: 20
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Refinement TLS params. | Method: refined / Refine-ID: X-RAY DIFFRACTION
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Refinement TLS group | Refine-ID: X-RAY DIFFRACTION / Selection: ALL
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