+Open data
-Basic information
Entry | Database: PDB / ID: 1kke | ||||||
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Title | Crystal Structure of Reovirus Attachment Protein Sigma1 Trimer | ||||||
Components | SIGMA 1 PROTEIN | ||||||
Keywords | VIRAL PROTEIN / reovirus / sigma1 / fiber / beta-spiral / beta-barrel / trimer / receptor-binding | ||||||
Function / homology | Function and homology information viral outer capsid / cell adhesion / symbiont entry into host cell / virion attachment to host cell Similarity search - Function | ||||||
Biological species | Mammalian orthoreovirus 3 | ||||||
Method | X-RAY DIFFRACTION / MIR / Resolution: 2.6 Å | ||||||
Authors | Chappell, J.D. / Prota, A.E. / Dermody, T.S. / Stehle, T. | ||||||
Citation | Journal: EMBO J. / Year: 2002 Title: Crystal structure of reovirus attachment protein sigma1 reveals evolutionary relationship to adenovirus fiber. Authors: Chappell, J.D. / Prota, A.E. / Dermody, T.S. / Stehle, T. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1kke.cif.gz | 127.9 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1kke.ent.gz | 101 KB | Display | PDB format |
PDBx/mmJSON format | 1kke.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/kk/1kke ftp://data.pdbj.org/pub/pdb/validation_reports/kk/1kke | HTTPS FTP |
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-Related structure data
Similar structure data |
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-Links
-Assembly
Deposited unit |
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1 |
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Unit cell |
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Details | The asymmetric unit contains a biologically active trimer |
-Components
#1: Protein | Mass: 22687.412 Da / Num. of mol.: 3 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Mammalian orthoreovirus 3 / Genus: Orthoreovirus / Species: Mammalian orthoreovirus / Strain: type 3 strain dearing / Cell line (production host): SF21 / Production host: Spodoptera frugiperda (fall armyworm) / References: UniProt: P03528 #2: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 2 |
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-Sample preparation
Crystal | Density Matthews: 2.06 Å3/Da / Density % sol: 40.37 % | ||||||||||||||||||||||||||||||
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Crystal grow | Temperature: 293 K / Method: vapor diffusion, hanging drop / pH: 7.5 Details: PEG4000, Isopropanol, Hepes, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K | ||||||||||||||||||||||||||||||
Crystal grow | *PLUS Temperature: 20 ℃ / Method: vapor diffusion | ||||||||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Mean temperature: 293 K |
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Diffraction source | Source: ROTATING ANODE / Type: RIGAKU RU300 / Wavelength: 1.541789 Å |
Detector | Type: RIGAKU RAXIS IV / Detector: IMAGE PLATE / Date: Feb 1, 2001 / Details: mirror |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.541789 Å / Relative weight: 1 |
Reflection | Resolution: 2.6→20 Å / Num. all: 17954 / Num. obs: 16338 / % possible obs: 91 % / Observed criterion σ(F): 2 / Observed criterion σ(I): 2 / Rmerge(I) obs: 0.087 / Net I/σ(I): 9 |
Reflection shell | Resolution: 2.6→2.7 Å / Rmerge(I) obs: 0.284 / Mean I/σ(I) obs: 2.2 / % possible all: 64 |
Reflection | *PLUS Lowest resolution: 20 Å / % possible obs: 91 % / Num. measured all: 56260 |
Reflection shell | *PLUS % possible obs: 64 % |
-Processing
Software |
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Refinement | Method to determine structure: MIR / Resolution: 2.6→20 Å / σ(F): 1 Stereochemistry target values: xplor parameter set (Engh & Huber)
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Refinement step | Cycle: LAST / Resolution: 2.6→20 Å
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Refine LS restraints |
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Software | *PLUS Name: X-PLOR / Version: 3.1 / Classification: refinement | ||||||||||||||||||||
Refinement | *PLUS Highest resolution: 2.6 Å / Lowest resolution: 20 Å / σ(F): 1 / % reflection Rfree: 5 % / Rfactor all: 0.172 / Rfactor Rfree: 0.235 | ||||||||||||||||||||
Solvent computation | *PLUS | ||||||||||||||||||||
Displacement parameters | *PLUS | ||||||||||||||||||||
Refine LS restraints | *PLUS Type: x_angle_deg / Dev ideal: 1.4 |