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Yorodumi- PDB-1cu4: CRYSTAL STRUCTURE OF THE ANTI-PRION FAB 3F4 IN COMPLEX WITH ITS P... -
+Open data
-Basic information
Entry | Database: PDB / ID: 1cu4 | ||||||
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Title | CRYSTAL STRUCTURE OF THE ANTI-PRION FAB 3F4 IN COMPLEX WITH ITS PEPTIDE EPITOPE | ||||||
Components |
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Keywords | IMMUNE SYSTEM / IMMUNOGLOBULIN FOLD | ||||||
Function / homology | Immunoglobulins / Immunoglobulin-like / Sandwich / Mainly Beta Function and homology information | ||||||
Biological species | Mus musculus (house mouse) | ||||||
Method | X-RAY DIFFRACTION / Resolution: 2.9 Å | ||||||
Authors | Kanyo, Z.F. / Pan, K.M. / Williamson, R.A. / Burton, D.R. / Prusiner, S.B. / Fletterick, R.J. / Cohen, F.E. | ||||||
Citation | Journal: J.Mol.Biol. / Year: 1999 Title: Antibody binding defines a structure for an epitope that participates in the PrPC-->PrPSc conformational change. Authors: Kanyo, Z.F. / Pan, K.M. / Williamson, R.A. / Burton, D.R. / Prusiner, S.B. / Fletterick, R.J. / Cohen, F.E. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1cu4.cif.gz | 85.5 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1cu4.ent.gz | 69.5 KB | Display | PDB format |
PDBx/mmJSON format | 1cu4.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 1cu4_validation.pdf.gz | 375.9 KB | Display | wwPDB validaton report |
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Full document | 1cu4_full_validation.pdf.gz | 386.5 KB | Display | |
Data in XML | 1cu4_validation.xml.gz | 10.7 KB | Display | |
Data in CIF | 1cu4_validation.cif.gz | 16.1 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/cu/1cu4 ftp://data.pdbj.org/pub/pdb/validation_reports/cu/1cu4 | HTTPS FTP |
-Related 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: 24080.775 Da / Num. of mol.: 1 / Fragment: FAB ANTIBODY 3F4, LIGHT CHAIN / Source method: isolated from a natural source / Source: (natural) Mus musculus (house mouse) |
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#2: Antibody | Mass: 23342.943 Da / Num. of mol.: 1 / Fragment: FAB ANTIBODY 3F4, HEAVY CHAIN / Source method: isolated from a natural source / Source: (natural) Mus musculus (house mouse) |
#3: Protein/peptide | Mass: 1131.390 Da / Num. of mol.: 1 / Source method: obtained synthetically Details: sequence cooresponding to aa104-113 of Syrian hamster prion protein |
#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: 2.11 Å3/Da / Density % sol: 41.61 % | ||||||||||||||||||||||||||||||
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Crystal grow | Temperature: 298 K / Method: vapor diffusion, hanging drop / pH: 7 Details: PEG 8000, pH 7.0, VAPOR DIFFUSION, HANGING DROP at 298K, temperature 298.0K | ||||||||||||||||||||||||||||||
Crystal grow | *PLUS | ||||||||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Mean temperature: 298 K |
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Diffraction source | Source: ROTATING ANODE / Type: RIGAKU RU200 / Wavelength: 1.5418 |
Detector | Type: RIGAKU RAXIS IIC / Detector: IMAGE PLATE / Date: May 28, 1997 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.5418 Å / Relative weight: 1 |
Reflection | Resolution: 2.9→20 Å / Num. all: 8689 / Num. obs: 8689 / % possible obs: 92.1 % / Observed criterion σ(I): 2 / Redundancy: 3.3 % / Biso Wilson estimate: 36.2 Å2 / Rmerge(I) obs: 0.077 / Net I/σ(I): 9.5 |
Reflection shell | Resolution: 2.9→3.03 Å / Redundancy: 2.9 % / Rmerge(I) obs: 0.216 / % possible all: 90.4 |
Reflection shell | *PLUS % possible obs: 90.4 % / Num. unique obs: 1011 |
-Processing
Software |
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Refinement | Resolution: 2.9→20 Å / Cross valid method: THROUGHOUT / σ(F): 2 / Stereochemistry target values: Engh & Huber
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Refinement step | Cycle: LAST / Resolution: 2.9→20 Å
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Refine LS restraints |
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